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<a href="Bio-module.html">Package Bio</a> ::
<a href="Bio.ECell-module.html">Package ECell</a> ::
Module Record
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<h1 class="epydoc">Source Code for <a href="Bio.ECell.Record-module.html">Module Bio.ECell.Record</a></h1>
<pre class="py-src">
<a name="L1"></a><tt class="py-lineno"> 1</tt> <tt class="py-line"><tt class="py-comment"># Copyright 2001 by Katharine Lindner. All rights reserved.</tt> </tt>
<a name="L2"></a><tt class="py-lineno"> 2</tt> <tt class="py-line"><tt class="py-comment"></tt><tt class="py-comment"># This code is part of the Biopython distribution and governed by its</tt> </tt>
<a name="L3"></a><tt class="py-lineno"> 3</tt> <tt class="py-line"><tt class="py-comment"></tt><tt class="py-comment"># license. Please see the LICENSE file that should have been included</tt> </tt>
<a name="L4"></a><tt class="py-lineno"> 4</tt> <tt class="py-line"><tt class="py-comment"></tt><tt class="py-comment"># as part of this package.</tt> </tt>
<a name="L5"></a><tt class="py-lineno"> 5</tt> <tt class="py-line"><tt class="py-comment"></tt> </tt>
<a name="L6"></a><tt class="py-lineno"> 6</tt> <tt class="py-line"><tt class="py-docstring">"""Martel based parser to read ECell formatted files.</tt> </tt>
<a name="L7"></a><tt class="py-lineno"> 7</tt> <tt class="py-line"><tt class="py-docstring"></tt> </tt>
<a name="L8"></a><tt class="py-lineno"> 8</tt> <tt class="py-line"><tt class="py-docstring">This is a huge regular regular expression for Ecell, built using</tt> </tt>
<a name="L9"></a><tt class="py-lineno"> 9</tt> <tt class="py-line"><tt class="py-docstring">the 'regular expressiona on steroids' capabilities of Martel.</tt> </tt>
<a name="L10"></a><tt class="py-lineno"> 10</tt> <tt class="py-line"><tt class="py-docstring"></tt> </tt>
<a name="L11"></a><tt class="py-lineno"> 11</tt> <tt class="py-line"><tt class="py-docstring">#http://www.bioinformatics.org/ecell2/</tt> </tt>
<a name="L12"></a><tt class="py-lineno"> 12</tt> <tt class="py-line"><tt class="py-docstring"></tt> </tt>
<a name="L13"></a><tt class="py-lineno"> 13</tt> <tt class="py-line"><tt class="py-docstring"></tt> </tt>
<a name="L14"></a><tt class="py-lineno"> 14</tt> <tt class="py-line"><tt class="py-docstring"></tt> </tt>
<a name="L15"></a><tt class="py-lineno"> 15</tt> <tt class="py-line"><tt class="py-docstring">Notes:</tt> </tt>
<a name="L16"></a><tt class="py-lineno"> 16</tt> <tt class="py-line"><tt class="py-docstring">Just so I remember -- the new end of line syntax is:</tt> </tt>
<a name="L17"></a><tt class="py-lineno"> 17</tt> <tt class="py-line"><tt class="py-docstring"> New regexp syntax - \R</tt> </tt>
<a name="L18"></a><tt class="py-lineno"> 18</tt> <tt class="py-line"><tt class="py-docstring"> \R means "\n|\r\n?"</tt> </tt>
<a name="L19"></a><tt class="py-lineno"> 19</tt> <tt class="py-line"><tt class="py-docstring"> [\R] means "[\n\r]"</tt> </tt>
<a name="L20"></a><tt class="py-lineno"> 20</tt> <tt class="py-line"><tt class="py-docstring"></tt> </tt>
<a name="L21"></a><tt class="py-lineno"> 21</tt> <tt class="py-line"><tt class="py-docstring">This helps us have endlines be consistent across platforms.</tt> </tt>
<a name="L22"></a><tt class="py-lineno"> 22</tt> <tt class="py-line"><tt class="py-docstring"></tt> </tt>
<a name="L23"></a><tt class="py-lineno"> 23</tt> <tt class="py-line"><tt class="py-docstring">"""</tt> </tt>
<a name="L24"></a><tt class="py-lineno"> 24</tt> <tt class="py-line"><tt class="py-comment"># standard library</tt> </tt>
<a name="L25"></a><tt class="py-lineno"> 25</tt> <tt class="py-line"><tt class="py-comment"></tt><tt class="py-keyword">import</tt> <tt class="py-name">string</tt> </tt>
<a name="L26"></a><tt class="py-lineno"> 26</tt> <tt class="py-line"> </tt>
<a name="L27"></a><tt class="py-lineno"> 27</tt> <tt class="py-line"> </tt>
<a name="L28"></a><tt class="py-lineno"> 28</tt> <tt class="py-line"> </tt>
<a name="L29"></a><tt class="py-lineno"> 29</tt> <tt class="py-line"> </tt>
<a name="L30"></a><tt class="py-lineno"> 30</tt> <tt class="py-line"> </tt>
<a name="L31"></a><tt class="py-lineno"> 31</tt> <tt class="py-line"><tt class="py-string">"""Hold ECell data in a straightforward format.</tt> </tt>
<a name="L32"></a><tt class="py-lineno"> 32</tt> <tt class="py-line"><tt class="py-string"></tt> </tt>
<a name="L33"></a><tt class="py-lineno"> 33</tt> <tt class="py-line"><tt class="py-string">classes:</tt> </tt>
<a name="L34"></a><tt class="py-lineno"> 34</tt> <tt class="py-line"><tt class="py-string">o Record - All of the information in an ECell record.</tt> </tt>
<a name="L35"></a><tt class="py-lineno"> 35</tt> <tt class="py-line"><tt class="py-string">"""</tt> </tt>
<a name="L36"></a><tt class="py-lineno"> 36</tt> <tt class="py-line"> </tt>
<a name="Record"></a><div id="Record-def"><a name="L37"></a><tt class="py-lineno"> 37</tt> <a class="py-toggle" href="#" id="Record-toggle" onclick="return toggle('Record');">-</a><tt class="py-line"><tt class="py-keyword">class</tt> <a class="py-def-name" href="Bio.ECell.Record.Record-class.html">Record</a><tt class="py-op">:</tt> </tt>
</div><div id="Record-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="Record-expanded"><a name="L38"></a><tt class="py-lineno"> 38</tt> <tt class="py-line"> <tt class="py-docstring">"""Hold ECell information in a format similar to the original record.</tt> </tt>
<a name="L39"></a><tt class="py-lineno"> 39</tt> <tt class="py-line"><tt class="py-docstring"></tt> </tt>
<a name="L40"></a><tt class="py-lineno"> 40</tt> <tt class="py-line"><tt class="py-docstring"></tt> </tt>
<a name="L41"></a><tt class="py-lineno"> 41</tt> <tt class="py-line"><tt class="py-docstring"> """</tt> </tt>
<a name="Record.__init__"></a><div id="Record.__init__-def"><a name="L42"></a><tt class="py-lineno"> 42</tt> <a class="py-toggle" href="#" id="Record.__init__-toggle" onclick="return toggle('Record.__init__');">-</a><tt class="py-line"> <tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.ECell.Record.Record-class.html#__init__">__init__</a><tt class="py-op">(</tt><tt class="py-param">self</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="Record.__init__-collapsed" style="display:none;" pad="+++" indent="++++++++"></div><div id="Record.__init__-expanded"><a name="L43"></a><tt class="py-lineno"> 43</tt> <tt class="py-line"> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt> </tt>
<a name="L44"></a><tt class="py-lineno"> 44</tt> <tt class="py-line"> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">_max_dict</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt> </tt>
<a name="L45"></a><tt class="py-lineno"> 45</tt> <tt class="py-line"> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">_duplicates</tt> <tt class="py-op">=</tt> <tt class="py-op">[</tt><tt class="py-op">]</tt> </tt>
<a name="L46"></a><tt class="py-lineno"> 46</tt> <tt class="py-line"> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">_ecell_version</tt> <tt class="py-op">=</tt> <tt class="py-string">'0.9.4.6'</tt> </tt>
<a name="L47"></a><tt class="py-lineno"> 47</tt> <tt class="py-line"> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt id="link-0" class="py-name" targets="Method Bio.KEGG.Compound.Record._name()=Bio.KEGG.Compound.Record-class.html#_name,Method Bio.KEGG.Enzyme.Record._name()=Bio.KEGG.Enzyme.Record-class.html#_name,Method Bio.MEME.Motif.Motif._name()=Bio.MEME.Motif.Motif-class.html#_name,Variable Bio.Mindy.XPath._name=Bio.Mindy.XPath-module.html#_name"><a title="Bio.KEGG.Compound.Record._name
Bio.KEGG.Enzyme.Record._name
Bio.MEME.Motif.Motif._name
Bio.Mindy.XPath._name" class="py-name" href="#" onclick="return doclink('link-0', '_name', 'link-0');">_name</a></tt> <tt class="py-op">=</tt> <tt class="py-string">'Ecell module'</tt> </tt>
<a name="L48"></a><tt class="py-lineno"> 48</tt> <tt class="py-line"> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt id="link-1" class="py-name" targets="Method Bio.MEME.Parser.MASTRecord._version()=Bio.MEME.Parser.MASTRecord-class.html#_version,Method Bio.MEME.Parser._MASTConsumer._version()=Bio.MEME.Parser._MASTConsumer-class.html#_version,Method Bio.MEME.Parser._MEMEConsumer._version()=Bio.MEME.Parser._MEMEConsumer-class.html#_version"><a title="Bio.MEME.Parser.MASTRecord._version
Bio.MEME.Parser._MASTConsumer._version
Bio.MEME.Parser._MEMEConsumer._version" class="py-name" href="#" onclick="return doclink('link-1', '_version', 'link-1');">_version</a></tt> <tt class="py-op">=</tt> <tt class="py-string">''</tt> </tt>
<a name="L49"></a><tt class="py-lineno"> 49</tt> <tt class="py-line"> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">include_buf</tt> <tt class="py-op">=</tt> <tt class="py-string">''</tt> </tt>
<a name="L50"></a><tt class="py-lineno"> 50</tt> <tt class="py-line"> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">num_systems</tt> <tt class="py-op">=</tt> <tt class="py-number">0</tt> </tt>
<a name="L51"></a><tt class="py-lineno"> 51</tt> <tt class="py-line"> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">num_substances</tt> <tt class="py-op">=</tt> <tt class="py-number">0</tt> </tt>
<a name="L52"></a><tt class="py-lineno"> 52</tt> <tt class="py-line"> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">num_reactors</tt> <tt class="py-op">=</tt> <tt class="py-number">0</tt> </tt>
<a name="L53"></a><tt class="py-lineno"> 53</tt> <tt class="py-line"> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">include_block</tt> <tt class="py-op">=</tt> <tt class="py-string">''</tt> </tt>
<a name="L54"></a><tt class="py-lineno"> 54</tt> <tt class="py-line"> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">contains_concentration</tt> <tt class="py-op">=</tt> <tt class="py-number">0</tt> </tt>
</div><a name="L55"></a><tt class="py-lineno"> 55</tt> <tt class="py-line"> </tt>
<a name="L56"></a><tt class="py-lineno"> 56</tt> <tt class="py-line"> </tt>
<a name="Record.__str__"></a><div id="Record.__str__-def"><a name="L57"></a><tt class="py-lineno"> 57</tt> <a class="py-toggle" href="#" id="Record.__str__-toggle" onclick="return toggle('Record.__str__');">-</a><tt class="py-line"> <tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.ECell.Record.Record-class.html#__str__">__str__</a><tt class="py-op">(</tt> <tt class="py-param">self</tt> <tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="Record.__str__-collapsed" style="display:none;" pad="+++" indent="++++++++"></div><div id="Record.__str__-expanded"><a name="L58"></a><tt class="py-lineno"> 58</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-string">'# this is ecell rule file for E-CELL'</tt> <tt class="py-op">+</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">_ecell_version</tt> <tt class="py-op">+</tt> <tt class="py-string">'\n'</tt> </tt>
<a name="L59"></a><tt class="py-lineno"> 59</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-string">'# converted by %s %s\n\n'</tt> <tt class="py-op">%</tt> <tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt id="link-2" class="py-name"><a title="Bio.KEGG.Compound.Record._name
Bio.KEGG.Enzyme.Record._name
Bio.MEME.Motif.Motif._name
Bio.Mindy.XPath._name" class="py-name" href="#" onclick="return doclink('link-2', '_name', 'link-0');">_name</a></tt><tt class="py-op">,</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt id="link-3" class="py-name"><a title="Bio.MEME.Parser.MASTRecord._version
Bio.MEME.Parser._MASTConsumer._version
Bio.MEME.Parser._MEMEConsumer._version" class="py-name" href="#" onclick="return doclink('link-3', '_version', 'link-1');">_version</a></tt> <tt class="py-op">)</tt> </tt>
<a name="L60"></a><tt class="py-lineno"> 60</tt> <tt class="py-line"> <tt class="py-keyword">if</tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">contains_concentration</tt> <tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
<a name="L61"></a><tt class="py-lineno"> 61</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-string">'include(qty.er)\n'</tt> </tt>
<a name="L62"></a><tt class="py-lineno"> 62</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">include_buf</tt> </tt>
<a name="L63"></a><tt class="py-lineno"> 63</tt> <tt class="py-line"> <tt class="py-name">system_output</tt> <tt class="py-op">=</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt id="link-4" class="py-name" targets="Method Bio.ECell.Record.Record._print_systems()=Bio.ECell.Record.Record-class.html#_print_systems"><a title="Bio.ECell.Record.Record._print_systems" class="py-name" href="#" onclick="return doclink('link-4', '_print_systems', 'link-4');">_print_systems</a></tt><tt class="py-op">(</tt><tt class="py-op">)</tt> </tt>
<a name="L64"></a><tt class="py-lineno"> 64</tt> <tt class="py-line"> <tt class="py-name">substance_output</tt> <tt class="py-op">=</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt id="link-5" class="py-name" targets="Method Bio.ECell.Record.Record._print_substances()=Bio.ECell.Record.Record-class.html#_print_substances"><a title="Bio.ECell.Record.Record._print_substances" class="py-name" href="#" onclick="return doclink('link-5', '_print_substances', 'link-5');">_print_substances</a></tt><tt class="py-op">(</tt><tt class="py-op">)</tt> </tt>
<a name="L65"></a><tt class="py-lineno"> 65</tt> <tt class="py-line"> <tt class="py-name">reactor_output</tt> <tt class="py-op">=</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt id="link-6" class="py-name" targets="Method Bio.ECell.Record.Record._print_reactors()=Bio.ECell.Record.Record-class.html#_print_reactors"><a title="Bio.ECell.Record.Record._print_reactors" class="py-name" href="#" onclick="return doclink('link-6', '_print_reactors', 'link-6');">_print_reactors</a></tt><tt class="py-op">(</tt> <tt class="py-name">substance_output</tt> <tt class="py-op">)</tt> </tt>
<a name="L66"></a><tt class="py-lineno"> 66</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-name">system_output</tt> <tt class="py-op">+</tt> <tt class="py-name">reactor_output</tt> </tt>
<a name="L67"></a><tt class="py-lineno"> 67</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt class="py-name">output</tt> </tt>
</div><a name="L68"></a><tt class="py-lineno"> 68</tt> <tt class="py-line"> </tt>
<a name="Record._print_systems"></a><div id="Record._print_systems-def"><a name="L69"></a><tt class="py-lineno"> 69</tt> <a class="py-toggle" href="#" id="Record._print_systems-toggle" onclick="return toggle('Record._print_systems');">-</a><tt class="py-line"> <tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.ECell.Record.Record-class.html#_print_systems">_print_systems</a><tt class="py-op">(</tt> <tt class="py-param">self</tt> <tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="Record._print_systems-collapsed" style="display:none;" pad="+++" indent="++++++++"></div><div id="Record._print_systems-expanded"><a name="L70"></a><tt class="py-lineno"> 70</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-string">''</tt> </tt>
<a name="L71"></a><tt class="py-lineno"> 71</tt> <tt class="py-line"> <tt class="py-keyword">for</tt> <tt class="py-name">system</tt> <tt class="py-keyword">in</tt> <tt class="py-name">range</tt><tt class="py-op">(</tt> <tt class="py-number">1</tt><tt class="py-op">,</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">num_systems</tt> <tt class="py-op">+</tt> <tt class="py-number">1</tt> <tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
<a name="L72"></a><tt class="py-lineno"> 72</tt> <tt class="py-line"> <tt class="py-name">composite_key</tt> <tt class="py-op">=</tt> <tt class="py-string">'system'</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">system</tt> <tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt class="py-string">'class0'</tt> </tt>
<a name="L73"></a><tt class="py-lineno"> 73</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-string">'\nsystem %s'</tt> <tt class="py-op">%</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt><tt class="py-op">[</tt> <tt class="py-name">composite_key</tt> <tt class="py-op">]</tt> </tt>
<a name="L74"></a><tt class="py-lineno"> 74</tt> <tt class="py-line"> <tt class="py-name">composite_key</tt> <tt class="py-op">=</tt> <tt class="py-string">'system'</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">system</tt> <tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt class="py-string">'path0'</tt> </tt>
<a name="L75"></a><tt class="py-lineno"> 75</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-string">'(%s:'</tt> <tt class="py-op">%</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt><tt class="py-op">[</tt> <tt class="py-name">composite_key</tt> <tt class="py-op">]</tt> </tt>
<a name="L76"></a><tt class="py-lineno"> 76</tt> <tt class="py-line"> <tt class="py-name">composite_key</tt> <tt class="py-op">=</tt> <tt class="py-string">'system'</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">system</tt> <tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt class="py-string">'id0'</tt> </tt>
<a name="L77"></a><tt class="py-lineno"> 77</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-string">'%s,'</tt> <tt class="py-op">%</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt><tt class="py-op">[</tt> <tt class="py-name">composite_key</tt> <tt class="py-op">]</tt> </tt>
<a name="L78"></a><tt class="py-lineno"> 78</tt> <tt class="py-line"> <tt class="py-name">composite_key</tt> <tt class="py-op">=</tt> <tt class="py-string">'system'</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">system</tt> <tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt class="py-string">'name0'</tt> </tt>
<a name="L79"></a><tt class="py-lineno"> 79</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-string">'"%s")\n'</tt> <tt class="py-op">%</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt><tt class="py-op">[</tt> <tt class="py-name">composite_key</tt> <tt class="py-op">]</tt> </tt>
<a name="L80"></a><tt class="py-lineno"> 80</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-string">'{\n'</tt> </tt>
<a name="L81"></a><tt class="py-lineno"> 81</tt> <tt class="py-line"> </tt>
<a name="L82"></a><tt class="py-lineno"> 82</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-string">'\tStepper SlaveStepper;\n'</tt> </tt>
<a name="L83"></a><tt class="py-lineno"> 83</tt> <tt class="py-line"> <tt class="py-name">composite_key</tt> <tt class="py-op">=</tt> <tt class="py-string">'system'</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">system</tt> <tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt class="py-string">'inside0'</tt> </tt>
<a name="L84"></a><tt class="py-lineno"> 84</tt> <tt class="py-line"> <tt class="py-keyword">if</tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt><tt class="py-op">.</tt><tt id="link-7" class="py-name" targets="Method Bio.Crystal.Crystal.has_key()=Bio.Crystal.Crystal-class.html#has_key,Method Bio.EUtils.POM.ElementNode.has_key()=Bio.EUtils.POM.ElementNode-class.html#has_key,Method Bio.GenBank.NCBIDictionary.has_key()=Bio.GenBank.NCBIDictionary-class.html#has_key,Method Bio.PDB.AbstractPropertyMap.AbstractPropertyMap.has_key()=Bio.PDB.AbstractPropertyMap.AbstractPropertyMap-class.html#has_key,Method Bio.PDB.FragmentMapper'.FragmentMapper.has_key()=Bio.PDB.FragmentMapper%27.FragmentMapper-class.html#has_key,Method Bio.Prosite.ExPASyDictionary.has_key()=Bio.Prosite.ExPASyDictionary-class.html#has_key,Method Bio.Prosite.Prodoc.ExPASyDictionary.has_key()=Bio.Prosite.Prodoc.ExPASyDictionary-class.html#has_key,Method Bio.PubMed.Dictionary.has_key()=Bio.PubMed.Dictionary-class.html#has_key,Method Bio.SwissProt.SProt.ExPASyDictionary.has_key()=Bio.SwissProt.SProt.ExPASyDictionary-class.html#has_key,Method Martel.Parser.MartelAttributeList.has_key()=Martel.Parser.MartelAttributeList-class.html#has_key"><a title="Bio.Crystal.Crystal.has_key
Bio.EUtils.POM.ElementNode.has_key
Bio.GenBank.NCBIDictionary.has_key
Bio.PDB.AbstractPropertyMap.AbstractPropertyMap.has_key
Bio.PDB.FragmentMapper'.FragmentMapper.has_key
Bio.Prosite.ExPASyDictionary.has_key
Bio.Prosite.Prodoc.ExPASyDictionary.has_key
Bio.PubMed.Dictionary.has_key
Bio.SwissProt.SProt.ExPASyDictionary.has_key
Martel.Parser.MartelAttributeList.has_key" class="py-name" href="#" onclick="return doclink('link-7', 'has_key', 'link-7');">has_key</a></tt><tt class="py-op">(</tt> <tt class="py-name">composite_key</tt> <tt class="py-op">)</tt> <tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
<a name="L85"></a><tt class="py-lineno"> 85</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-string">'\tInside %s;\n'</tt> <tt class="py-op">%</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt><tt class="py-op">[</tt> <tt class="py-name">composite_key</tt> <tt class="py-op">]</tt> </tt>
<a name="L86"></a><tt class="py-lineno"> 86</tt> <tt class="py-line"> <tt class="py-name">composite_key</tt> <tt class="py-op">=</tt> <tt class="py-string">'system'</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">system</tt> <tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt class="py-string">'outside0'</tt> </tt>
<a name="L87"></a><tt class="py-lineno"> 87</tt> <tt class="py-line"> <tt class="py-keyword">if</tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt><tt class="py-op">.</tt><tt id="link-8" class="py-name"><a title="Bio.Crystal.Crystal.has_key
Bio.EUtils.POM.ElementNode.has_key
Bio.GenBank.NCBIDictionary.has_key
Bio.PDB.AbstractPropertyMap.AbstractPropertyMap.has_key
Bio.PDB.FragmentMapper'.FragmentMapper.has_key
Bio.Prosite.ExPASyDictionary.has_key
Bio.Prosite.Prodoc.ExPASyDictionary.has_key
Bio.PubMed.Dictionary.has_key
Bio.SwissProt.SProt.ExPASyDictionary.has_key
Martel.Parser.MartelAttributeList.has_key" class="py-name" href="#" onclick="return doclink('link-8', 'has_key', 'link-7');">has_key</a></tt><tt class="py-op">(</tt> <tt class="py-name">composite_key</tt> <tt class="py-op">)</tt> <tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
<a name="L88"></a><tt class="py-lineno"> 88</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-string">'\tOutside %s;\n'</tt> <tt class="py-op">%</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt><tt class="py-op">[</tt> <tt class="py-name">composite_key</tt> <tt class="py-op">]</tt> </tt>
<a name="L89"></a><tt class="py-lineno"> 89</tt> <tt class="py-line"> <tt class="py-name">composite_key</tt> <tt class="py-op">=</tt> <tt class="py-string">'system'</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">system</tt> <tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt class="py-string">'volumeindex0'</tt> </tt>
<a name="L90"></a><tt class="py-lineno"> 90</tt> <tt class="py-line"> <tt class="py-keyword">if</tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt><tt class="py-op">.</tt><tt id="link-9" class="py-name"><a title="Bio.Crystal.Crystal.has_key
Bio.EUtils.POM.ElementNode.has_key
Bio.GenBank.NCBIDictionary.has_key
Bio.PDB.AbstractPropertyMap.AbstractPropertyMap.has_key
Bio.PDB.FragmentMapper'.FragmentMapper.has_key
Bio.Prosite.ExPASyDictionary.has_key
Bio.Prosite.Prodoc.ExPASyDictionary.has_key
Bio.PubMed.Dictionary.has_key
Bio.SwissProt.SProt.ExPASyDictionary.has_key
Martel.Parser.MartelAttributeList.has_key" class="py-name" href="#" onclick="return doclink('link-9', 'has_key', 'link-7');">has_key</a></tt><tt class="py-op">(</tt> <tt class="py-name">composite_key</tt> <tt class="py-op">)</tt> <tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
<a name="L91"></a><tt class="py-lineno"> 91</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-string">'\tVolumeIndex %s;\n'</tt> <tt class="py-op">%</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt><tt class="py-op">[</tt> <tt class="py-name">composite_key</tt> <tt class="py-op">]</tt> </tt>
<a name="L92"></a><tt class="py-lineno"> 92</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-string">'}\n'</tt> </tt>
<a name="L93"></a><tt class="py-lineno"> 93</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt class="py-name">output</tt> </tt>
</div><a name="L94"></a><tt class="py-lineno"> 94</tt> <tt class="py-line"> </tt>
<a name="Record._print_substances"></a><div id="Record._print_substances-def"><a name="L95"></a><tt class="py-lineno"> 95</tt> <a class="py-toggle" href="#" id="Record._print_substances-toggle" onclick="return toggle('Record._print_substances');">-</a><tt class="py-line"> <tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.ECell.Record.Record-class.html#_print_substances">_print_substances</a><tt class="py-op">(</tt> <tt class="py-param">self</tt> <tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="Record._print_substances-collapsed" style="display:none;" pad="+++" indent="++++++++"></div><div id="Record._print_substances-expanded"><a name="L96"></a><tt class="py-lineno"> 96</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-string">''</tt> </tt>
<a name="L97"></a><tt class="py-lineno"> 97</tt> <tt class="py-line"> <tt class="py-keyword">for</tt> <tt class="py-name">substance</tt> <tt class="py-keyword">in</tt> <tt class="py-name">range</tt><tt class="py-op">(</tt> <tt class="py-number">1</tt><tt class="py-op">,</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">num_substances</tt> <tt class="py-op">+</tt> <tt class="py-number">1</tt> <tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
<a name="L98"></a><tt class="py-lineno"> 98</tt> <tt class="py-line"> <tt class="py-name">composite_key</tt> <tt class="py-op">=</tt> <tt class="py-string">'substance'</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">substance</tt> <tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt class="py-string">'class0'</tt> </tt>
<a name="L99"></a><tt class="py-lineno"> 99</tt> <tt class="py-line"> <tt class="py-keyword">if</tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt><tt class="py-op">.</tt><tt id="link-10" class="py-name"><a title="Bio.Crystal.Crystal.has_key
Bio.EUtils.POM.ElementNode.has_key
Bio.GenBank.NCBIDictionary.has_key
Bio.PDB.AbstractPropertyMap.AbstractPropertyMap.has_key
Bio.PDB.FragmentMapper'.FragmentMapper.has_key
Bio.Prosite.ExPASyDictionary.has_key
Bio.Prosite.Prodoc.ExPASyDictionary.has_key
Bio.PubMed.Dictionary.has_key
Bio.SwissProt.SProt.ExPASyDictionary.has_key
Martel.Parser.MartelAttributeList.has_key" class="py-name" href="#" onclick="return doclink('link-10', 'has_key', 'link-7');">has_key</a></tt><tt class="py-op">(</tt> <tt class="py-name">composite_key</tt> <tt class="py-op">)</tt> <tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
<a name="L100"></a><tt class="py-lineno">100</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-string">'substance %s'</tt> <tt class="py-op">%</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt><tt class="py-op">[</tt> <tt class="py-name">composite_key</tt> <tt class="py-op">]</tt> </tt>
<a name="L101"></a><tt class="py-lineno">101</tt> <tt class="py-line"> <tt class="py-name">composite_key</tt> <tt class="py-op">=</tt> <tt class="py-string">'substance'</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">substance</tt> <tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt class="py-string">'path0'</tt> </tt>
<a name="L102"></a><tt class="py-lineno">102</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-string">'(%s:'</tt> <tt class="py-op">%</tt> <tt id="link-11" class="py-name" targets="Function Bio.ECell.Record.get_entry()=Bio.ECell.Record-module.html#get_entry,Method Bio.Mindy.FlatDB.BisectFile.get_entry()=Bio.Mindy.FlatDB.BisectFile-class.html#get_entry"><a title="Bio.ECell.Record.get_entry
Bio.Mindy.FlatDB.BisectFile.get_entry" class="py-name" href="#" onclick="return doclink('link-11', 'get_entry', 'link-11');">get_entry</a></tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt><tt class="py-op">,</tt> <tt class="py-name">composite_key</tt> <tt class="py-op">)</tt> </tt>
<a name="L103"></a><tt class="py-lineno">103</tt> <tt class="py-line"> <tt class="py-name">composite_key</tt> <tt class="py-op">=</tt> <tt class="py-string">'substance'</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">substance</tt> <tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt class="py-string">'id0'</tt> </tt>
<a name="L104"></a><tt class="py-lineno">104</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-string">'%s,'</tt> <tt class="py-op">%</tt> <tt id="link-12" class="py-name"><a title="Bio.ECell.Record.get_entry
Bio.Mindy.FlatDB.BisectFile.get_entry" class="py-name" href="#" onclick="return doclink('link-12', 'get_entry', 'link-11');">get_entry</a></tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt><tt class="py-op">,</tt> <tt class="py-name">composite_key</tt> <tt class="py-op">)</tt> </tt>
<a name="L105"></a><tt class="py-lineno">105</tt> <tt class="py-line"> <tt class="py-name">composite_key</tt> <tt class="py-op">=</tt> <tt class="py-string">'substance'</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">substance</tt> <tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt class="py-string">'name0'</tt> </tt>
<a name="L106"></a><tt class="py-lineno">106</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-string">'"%s")\n'</tt> <tt class="py-op">%</tt> <tt id="link-13" class="py-name"><a title="Bio.ECell.Record.get_entry
Bio.Mindy.FlatDB.BisectFile.get_entry" class="py-name" href="#" onclick="return doclink('link-13', 'get_entry', 'link-11');">get_entry</a></tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt><tt class="py-op">,</tt> <tt class="py-name">composite_key</tt> <tt class="py-op">)</tt> </tt>
<a name="L107"></a><tt class="py-lineno">107</tt> <tt class="py-line"> <tt class="py-name">composite_key</tt> <tt class="py-op">=</tt> <tt class="py-string">'substance'</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">substance</tt> <tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt class="py-string">'qty0'</tt> </tt>
<a name="L108"></a><tt class="py-lineno">108</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-string">'{\n\tQuantity %s;\n}\n'</tt> <tt class="py-op">%</tt> <tt id="link-14" class="py-name"><a title="Bio.ECell.Record.get_entry
Bio.Mindy.FlatDB.BisectFile.get_entry" class="py-name" href="#" onclick="return doclink('link-14', 'get_entry', 'link-11');">get_entry</a></tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt><tt class="py-op">,</tt> <tt class="py-name">composite_key</tt> <tt class="py-op">)</tt> </tt>
<a name="L109"></a><tt class="py-lineno">109</tt> <tt class="py-line"> <tt class="py-keyword">else</tt><tt class="py-op">:</tt> </tt>
<a name="L110"></a><tt class="py-lineno">110</tt> <tt class="py-line"> <tt class="py-name">composite_key</tt> <tt class="py-op">=</tt> <tt class="py-string">'substance'</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">substance</tt> <tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt class="py-string">'path0'</tt> </tt>
<a name="L111"></a><tt class="py-lineno">111</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-string">'substance %s:'</tt> <tt class="py-op">%</tt> <tt id="link-15" class="py-name"><a title="Bio.ECell.Record.get_entry
Bio.Mindy.FlatDB.BisectFile.get_entry" class="py-name" href="#" onclick="return doclink('link-15', 'get_entry', 'link-11');">get_entry</a></tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt><tt class="py-op">,</tt> <tt class="py-name">composite_key</tt> <tt class="py-op">)</tt> </tt>
<a name="L112"></a><tt class="py-lineno">112</tt> <tt class="py-line"> <tt class="py-name">composite_key</tt> <tt class="py-op">=</tt> <tt class="py-string">'substance'</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">substance</tt> <tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt class="py-string">'id0'</tt> </tt>
<a name="L113"></a><tt class="py-lineno">113</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-string">'%s '</tt> <tt class="py-op">%</tt> <tt id="link-16" class="py-name"><a title="Bio.ECell.Record.get_entry
Bio.Mindy.FlatDB.BisectFile.get_entry" class="py-name" href="#" onclick="return doclink('link-16', 'get_entry', 'link-11');">get_entry</a></tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt><tt class="py-op">,</tt> <tt class="py-name">composite_key</tt> <tt class="py-op">)</tt> </tt>
<a name="L114"></a><tt class="py-lineno">114</tt> <tt class="py-line"> <tt class="py-name">composite_key</tt> <tt class="py-op">=</tt> <tt class="py-string">'substance'</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">substance</tt> <tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt class="py-string">'name0'</tt> </tt>
<a name="L115"></a><tt class="py-lineno">115</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-string">'"%s" '</tt> <tt class="py-op">%</tt> <tt id="link-17" class="py-name"><a title="Bio.ECell.Record.get_entry
Bio.Mindy.FlatDB.BisectFile.get_entry" class="py-name" href="#" onclick="return doclink('link-17', 'get_entry', 'link-11');">get_entry</a></tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt><tt class="py-op">,</tt> <tt class="py-name">composite_key</tt> <tt class="py-op">)</tt> </tt>
<a name="L116"></a><tt class="py-lineno">116</tt> <tt class="py-line"> <tt class="py-name">composite_key</tt> <tt class="py-op">=</tt> <tt class="py-string">'substance'</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">substance</tt> <tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt class="py-string">'qty0'</tt> </tt>
<a name="L117"></a><tt class="py-lineno">117</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-string">'%s;\n'</tt> <tt class="py-op">%</tt> <tt id="link-18" class="py-name"><a title="Bio.ECell.Record.get_entry
Bio.Mindy.FlatDB.BisectFile.get_entry" class="py-name" href="#" onclick="return doclink('link-18', 'get_entry', 'link-11');">get_entry</a></tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt><tt class="py-op">,</tt> <tt class="py-name">composite_key</tt> <tt class="py-op">)</tt> </tt>
<a name="L118"></a><tt class="py-lineno">118</tt> <tt class="py-line"> <tt class="py-name">qty_key</tt> <tt class="py-op">=</tt> <tt class="py-string">'substance'</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">substance</tt> <tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt class="py-string">'qty1'</tt> </tt>
<a name="L119"></a><tt class="py-lineno">119</tt> <tt class="py-line"> <tt class="py-name">conc_key</tt> <tt class="py-op">=</tt> <tt class="py-string">'substance'</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">substance</tt> <tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt class="py-string">'conc1'</tt> </tt>
<a name="L120"></a><tt class="py-lineno">120</tt> <tt class="py-line"> <tt class="py-keyword">if</tt><tt class="py-op">(</tt> <tt id="link-19" class="py-name"><a title="Bio.ECell.Record.get_entry
Bio.Mindy.FlatDB.BisectFile.get_entry" class="py-name" href="#" onclick="return doclink('link-19', 'get_entry', 'link-11');">get_entry</a></tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt><tt class="py-op">,</tt> <tt class="py-name">qty_key</tt> <tt class="py-op">)</tt><tt class="py-op">.</tt><tt class="py-name">lower</tt><tt class="py-op">(</tt><tt class="py-op">)</tt> <tt class="py-op">==</tt> <tt class="py-string">'fix'</tt> <tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
<a name="L121"></a><tt class="py-lineno">121</tt> <tt class="py-line"> <tt class="py-name">composite_key</tt> <tt class="py-op">=</tt> <tt class="py-string">'substance'</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">substance</tt> <tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt class="py-string">'path0'</tt> </tt>
<a name="L122"></a><tt class="py-lineno">122</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-string">'fix %s:'</tt> <tt class="py-op">%</tt> <tt id="link-20" class="py-name"><a title="Bio.ECell.Record.get_entry
Bio.Mindy.FlatDB.BisectFile.get_entry" class="py-name" href="#" onclick="return doclink('link-20', 'get_entry', 'link-11');">get_entry</a></tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt><tt class="py-op">,</tt> <tt class="py-name">composite_key</tt> <tt class="py-op">)</tt> </tt>
<a name="L123"></a><tt class="py-lineno">123</tt> <tt class="py-line"> <tt class="py-name">composite_key</tt> <tt class="py-op">=</tt> <tt class="py-string">'substance'</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">substance</tt> <tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt class="py-string">'id0'</tt> </tt>
<a name="L124"></a><tt class="py-lineno">124</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-string">'%s;\n'</tt> <tt class="py-op">%</tt> <tt id="link-21" class="py-name"><a title="Bio.ECell.Record.get_entry
Bio.Mindy.FlatDB.BisectFile.get_entry" class="py-name" href="#" onclick="return doclink('link-21', 'get_entry', 'link-11');">get_entry</a></tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt><tt class="py-op">,</tt> <tt class="py-name">composite_key</tt> <tt class="py-op">)</tt> </tt>
<a name="L125"></a><tt class="py-lineno">125</tt> <tt class="py-line"> <tt class="py-keyword">elif</tt><tt class="py-op">(</tt> <tt id="link-22" class="py-name"><a title="Bio.ECell.Record.get_entry
Bio.Mindy.FlatDB.BisectFile.get_entry" class="py-name" href="#" onclick="return doclink('link-22', 'get_entry', 'link-11');">get_entry</a></tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt><tt class="py-op">,</tt> <tt class="py-name">conc_key</tt> <tt class="py-op">)</tt><tt class="py-op">.</tt><tt class="py-name">lower</tt><tt class="py-op">(</tt><tt class="py-op">)</tt> <tt class="py-op">==</tt> <tt class="py-string">'fix'</tt> <tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
<a name="L126"></a><tt class="py-lineno">126</tt> <tt class="py-line"> <tt class="py-name">composite_key</tt> <tt class="py-op">=</tt> <tt class="py-string">'substance'</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">substance</tt> <tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt class="py-string">'path0'</tt> </tt>
<a name="L127"></a><tt class="py-lineno">127</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-string">'fix %s:'</tt> <tt class="py-op">%</tt> <tt id="link-23" class="py-name"><a title="Bio.ECell.Record.get_entry
Bio.Mindy.FlatDB.BisectFile.get_entry" class="py-name" href="#" onclick="return doclink('link-23', 'get_entry', 'link-11');">get_entry</a></tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt><tt class="py-op">,</tt> <tt class="py-name">composite_key</tt> <tt class="py-op">)</tt> </tt>
<a name="L128"></a><tt class="py-lineno">128</tt> <tt class="py-line"> <tt class="py-name">composite_key</tt> <tt class="py-op">=</tt> <tt class="py-string">'substance'</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">substance</tt> <tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt class="py-string">'id0'</tt> </tt>
<a name="L129"></a><tt class="py-lineno">129</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-string">'%s;\n'</tt> <tt class="py-op">%</tt> <tt id="link-24" class="py-name"><a title="Bio.ECell.Record.get_entry
Bio.Mindy.FlatDB.BisectFile.get_entry" class="py-name" href="#" onclick="return doclink('link-24', 'get_entry', 'link-11');">get_entry</a></tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt><tt class="py-op">,</tt> <tt class="py-name">composite_key</tt> <tt class="py-op">)</tt> </tt>
<a name="L130"></a><tt class="py-lineno">130</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt class="py-name">output</tt> </tt>
</div><a name="L131"></a><tt class="py-lineno">131</tt> <tt class="py-line"> </tt>
<a name="Record._print_reactors"></a><div id="Record._print_reactors-def"><a name="L132"></a><tt class="py-lineno">132</tt> <a class="py-toggle" href="#" id="Record._print_reactors-toggle" onclick="return toggle('Record._print_reactors');">-</a><tt class="py-line"> <tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.ECell.Record.Record-class.html#_print_reactors">_print_reactors</a><tt class="py-op">(</tt> <tt class="py-param">self</tt><tt class="py-op">,</tt> <tt class="py-param">output</tt> <tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="Record._print_reactors-collapsed" style="display:none;" pad="+++" indent="++++++++"></div><div id="Record._print_reactors-expanded"><a name="L133"></a><tt class="py-lineno">133</tt> <tt class="py-line"> <tt class="py-name">volume_buf</tt> <tt class="py-op">=</tt> <tt class="py-string">'\n'</tt> </tt>
<a name="L134"></a><tt class="py-lineno">134</tt> <tt class="py-line"> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt id="link-25" class="py-name" targets="Method Bio.ECell.Record.Record._check_duplicates()=Bio.ECell.Record.Record-class.html#_check_duplicates"><a title="Bio.ECell.Record.Record._check_duplicates" class="py-name" href="#" onclick="return doclink('link-25', '_check_duplicates', 'link-25');">_check_duplicates</a></tt><tt class="py-op">(</tt><tt class="py-op">)</tt> </tt>
<a name="L135"></a><tt class="py-lineno">135</tt> <tt class="py-line"> <tt class="py-keyword">for</tt> <tt class="py-name">reactor</tt> <tt class="py-keyword">in</tt> <tt class="py-name">range</tt><tt class="py-op">(</tt> <tt class="py-number">1</tt><tt class="py-op">,</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">num_reactors</tt> <tt class="py-op">+</tt> <tt class="py-number">1</tt> <tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
<a name="L136"></a><tt class="py-lineno">136</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-string">'\nreactor '</tt> </tt>
<a name="L137"></a><tt class="py-lineno">137</tt> <tt class="py-line"> <tt id="link-26" class="py-name" targets="Variable Bio.DocSQL.Query.prefix=Bio.DocSQL.Query-class.html#prefix"><a title="Bio.DocSQL.Query.prefix" class="py-name" href="#" onclick="return doclink('link-26', 'prefix', 'link-26');">prefix</a></tt> <tt class="py-op">=</tt> <tt class="py-string">'reactor'</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">reactor</tt> <tt class="py-op">)</tt> </tt>
<a name="L138"></a><tt class="py-lineno">138</tt> <tt class="py-line"> <tt class="py-name">composite_key</tt> <tt class="py-op">=</tt> <tt id="link-27" class="py-name"><a title="Bio.DocSQL.Query.prefix" class="py-name" href="#" onclick="return doclink('link-27', 'prefix', 'link-26');">prefix</a></tt> <tt class="py-op">+</tt> <tt class="py-string">'class0'</tt> </tt>
<a name="L139"></a><tt class="py-lineno">139</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt><tt class="py-op">[</tt> <tt class="py-name">composite_key</tt> <tt class="py-op">]</tt> </tt>
<a name="L140"></a><tt class="py-lineno">140</tt> <tt class="py-line"> <tt class="py-name">composite_key</tt> <tt class="py-op">=</tt> <tt id="link-28" class="py-name"><a title="Bio.DocSQL.Query.prefix" class="py-name" href="#" onclick="return doclink('link-28', 'prefix', 'link-26');">prefix</a></tt> <tt class="py-op">+</tt> <tt class="py-string">'path0'</tt> </tt>
<a name="L141"></a><tt class="py-lineno">141</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-string">'(%s:'</tt> <tt class="py-op">%</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt><tt class="py-op">[</tt> <tt class="py-name">composite_key</tt> <tt class="py-op">]</tt> </tt>
<a name="L142"></a><tt class="py-lineno">142</tt> <tt class="py-line"> <tt class="py-name">composite_key</tt> <tt class="py-op">=</tt> <tt id="link-29" class="py-name"><a title="Bio.DocSQL.Query.prefix" class="py-name" href="#" onclick="return doclink('link-29', 'prefix', 'link-26');">prefix</a></tt> <tt class="py-op">+</tt> <tt class="py-string">'id0'</tt> </tt>
<a name="L143"></a><tt class="py-lineno">143</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-string">'%s,'</tt> <tt class="py-op">%</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt><tt class="py-op">[</tt> <tt class="py-name">composite_key</tt> <tt class="py-op">]</tt> </tt>
<a name="L144"></a><tt class="py-lineno">144</tt> <tt class="py-line"> <tt class="py-name">composite_key</tt> <tt class="py-op">=</tt> <tt id="link-30" class="py-name"><a title="Bio.DocSQL.Query.prefix" class="py-name" href="#" onclick="return doclink('link-30', 'prefix', 'link-26');">prefix</a></tt> <tt class="py-op">+</tt> <tt class="py-string">'name0'</tt> </tt>
<a name="L145"></a><tt class="py-lineno">145</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-string">'"%s")\n'</tt> <tt class="py-op">%</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt><tt class="py-op">[</tt> <tt class="py-name">composite_key</tt> <tt class="py-op">]</tt> </tt>
<a name="L146"></a><tt class="py-lineno">146</tt> <tt class="py-line"> </tt>
<a name="L147"></a><tt class="py-lineno">147</tt> <tt class="py-line"> <tt class="py-name">composite_key</tt> <tt class="py-op">=</tt> <tt class="py-string">'s_'</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">reactor</tt> <tt class="py-op">)</tt> </tt>
<a name="L148"></a><tt class="py-lineno">148</tt> <tt class="py-line"> <tt class="py-name">num_substrates</tt> <tt class="py-op">=</tt> <tt id="link-31" class="py-name"><a title="Bio.ECell.Record.get_entry
Bio.Mindy.FlatDB.BisectFile.get_entry" class="py-name" href="#" onclick="return doclink('link-31', 'get_entry', 'link-11');">get_entry</a></tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">_max_dict</tt><tt class="py-op">,</tt> <tt class="py-name">composite_key</tt> <tt class="py-op">)</tt> </tt>
<a name="L149"></a><tt class="py-lineno">149</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-string">'{\n'</tt> </tt>
<a name="L150"></a><tt class="py-lineno">150</tt> <tt class="py-line"> <tt class="py-keyword">for</tt> <tt class="py-name">substrate</tt> <tt class="py-keyword">in</tt> <tt class="py-name">range</tt><tt class="py-op">(</tt> <tt class="py-number">1</tt><tt class="py-op">,</tt> <tt class="py-name">num_substrates</tt> <tt class="py-op">+</tt> <tt class="py-number">1</tt> <tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
<a name="L151"></a><tt class="py-lineno">151</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-string">'\tSubstrate '</tt> </tt>
<a name="L152"></a><tt class="py-lineno">152</tt> <tt class="py-line"> <tt class="py-name">composite_key</tt> <tt class="py-op">=</tt> <tt id="link-32" class="py-name"><a title="Bio.DocSQL.Query.prefix" class="py-name" href="#" onclick="return doclink('link-32', 'prefix', 'link-26');">prefix</a></tt> <tt class="py-op">+</tt> <tt class="py-string">'s_path'</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">substrate</tt> <tt class="py-op">)</tt> </tt>
<a name="L153"></a><tt class="py-lineno">153</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt id="link-33" class="py-name"><a title="Bio.ECell.Record.get_entry
Bio.Mindy.FlatDB.BisectFile.get_entry" class="py-name" href="#" onclick="return doclink('link-33', 'get_entry', 'link-11');">get_entry</a></tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt><tt class="py-op">,</tt> <tt class="py-name">composite_key</tt> <tt class="py-op">)</tt> </tt>
<a name="L154"></a><tt class="py-lineno">154</tt> <tt class="py-line"> <tt class="py-name">composite_key</tt> <tt class="py-op">=</tt> <tt id="link-34" class="py-name"><a title="Bio.DocSQL.Query.prefix" class="py-name" href="#" onclick="return doclink('link-34', 'prefix', 'link-26');">prefix</a></tt> <tt class="py-op">+</tt> <tt class="py-string">'s_id'</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">substrate</tt> <tt class="py-op">)</tt> </tt>
<a name="L155"></a><tt class="py-lineno">155</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-string">':%s '</tt> <tt class="py-op">%</tt> <tt id="link-35" class="py-name"><a title="Bio.ECell.Record.get_entry
Bio.Mindy.FlatDB.BisectFile.get_entry" class="py-name" href="#" onclick="return doclink('link-35', 'get_entry', 'link-11');">get_entry</a></tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt><tt class="py-op">,</tt> <tt class="py-name">composite_key</tt> <tt class="py-op">)</tt> </tt>
<a name="L156"></a><tt class="py-lineno">156</tt> <tt class="py-line"> <tt class="py-name">composite_key</tt> <tt class="py-op">=</tt> <tt id="link-36" class="py-name"><a title="Bio.DocSQL.Query.prefix" class="py-name" href="#" onclick="return doclink('link-36', 'prefix', 'link-26');">prefix</a></tt> <tt class="py-op">+</tt> <tt class="py-string">'s_coeff'</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">substrate</tt> <tt class="py-op">)</tt> </tt>
<a name="L157"></a><tt class="py-lineno">157</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-string">'%s'</tt> <tt class="py-op">%</tt> <tt id="link-37" class="py-name"><a title="Bio.ECell.Record.get_entry
Bio.Mindy.FlatDB.BisectFile.get_entry" class="py-name" href="#" onclick="return doclink('link-37', 'get_entry', 'link-11');">get_entry</a></tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt><tt class="py-op">,</tt> <tt class="py-name">composite_key</tt> <tt class="py-op">)</tt> </tt>
<a name="L158"></a><tt class="py-lineno">158</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-string">';\n'</tt> </tt>
<a name="L159"></a><tt class="py-lineno">159</tt> <tt class="py-line"> </tt>
<a name="L160"></a><tt class="py-lineno">160</tt> <tt class="py-line"> <tt class="py-name">composite_key</tt> <tt class="py-op">=</tt> <tt class="py-string">'p_'</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">reactor</tt> <tt class="py-op">)</tt> </tt>
<a name="L161"></a><tt class="py-lineno">161</tt> <tt class="py-line"> <tt class="py-name">num_products</tt> <tt class="py-op">=</tt> <tt id="link-38" class="py-name"><a title="Bio.ECell.Record.get_entry
Bio.Mindy.FlatDB.BisectFile.get_entry" class="py-name" href="#" onclick="return doclink('link-38', 'get_entry', 'link-11');">get_entry</a></tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">_max_dict</tt><tt class="py-op">,</tt> <tt class="py-name">composite_key</tt> <tt class="py-op">)</tt> </tt>
<a name="L162"></a><tt class="py-lineno">162</tt> <tt class="py-line"> <tt class="py-keyword">for</tt> <tt class="py-name">product</tt> <tt class="py-keyword">in</tt> <tt class="py-name">range</tt><tt class="py-op">(</tt> <tt class="py-number">1</tt><tt class="py-op">,</tt> <tt class="py-name">num_products</tt> <tt class="py-op">+</tt> <tt class="py-number">1</tt> <tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
<a name="L163"></a><tt class="py-lineno">163</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-string">'\tProduct '</tt> </tt>
<a name="L164"></a><tt class="py-lineno">164</tt> <tt class="py-line"> <tt class="py-name">composite_key</tt> <tt class="py-op">=</tt> <tt id="link-39" class="py-name"><a title="Bio.DocSQL.Query.prefix" class="py-name" href="#" onclick="return doclink('link-39', 'prefix', 'link-26');">prefix</a></tt> <tt class="py-op">+</tt> <tt class="py-string">'p_path'</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">product</tt> <tt class="py-op">)</tt> </tt>
<a name="L165"></a><tt class="py-lineno">165</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt id="link-40" class="py-name"><a title="Bio.ECell.Record.get_entry
Bio.Mindy.FlatDB.BisectFile.get_entry" class="py-name" href="#" onclick="return doclink('link-40', 'get_entry', 'link-11');">get_entry</a></tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt><tt class="py-op">,</tt> <tt class="py-name">composite_key</tt> <tt class="py-op">)</tt> </tt>
<a name="L166"></a><tt class="py-lineno">166</tt> <tt class="py-line"> <tt class="py-name">composite_key</tt> <tt class="py-op">=</tt> <tt id="link-41" class="py-name"><a title="Bio.DocSQL.Query.prefix" class="py-name" href="#" onclick="return doclink('link-41', 'prefix', 'link-26');">prefix</a></tt> <tt class="py-op">+</tt> <tt class="py-string">'p_id'</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">product</tt> <tt class="py-op">)</tt> </tt>
<a name="L167"></a><tt class="py-lineno">167</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-string">':%s '</tt> <tt class="py-op">%</tt> <tt id="link-42" class="py-name"><a title="Bio.ECell.Record.get_entry
Bio.Mindy.FlatDB.BisectFile.get_entry" class="py-name" href="#" onclick="return doclink('link-42', 'get_entry', 'link-11');">get_entry</a></tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt><tt class="py-op">,</tt> <tt class="py-name">composite_key</tt> <tt class="py-op">)</tt> </tt>
<a name="L168"></a><tt class="py-lineno">168</tt> <tt class="py-line"> <tt class="py-name">composite_key</tt> <tt class="py-op">=</tt> <tt id="link-43" class="py-name"><a title="Bio.DocSQL.Query.prefix" class="py-name" href="#" onclick="return doclink('link-43', 'prefix', 'link-26');">prefix</a></tt> <tt class="py-op">+</tt> <tt class="py-string">'p_coeff'</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">product</tt> <tt class="py-op">)</tt> </tt>
<a name="L169"></a><tt class="py-lineno">169</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-string">'%s'</tt> <tt class="py-op">%</tt> <tt id="link-44" class="py-name"><a title="Bio.ECell.Record.get_entry
Bio.Mindy.FlatDB.BisectFile.get_entry" class="py-name" href="#" onclick="return doclink('link-44', 'get_entry', 'link-11');">get_entry</a></tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt><tt class="py-op">,</tt> <tt class="py-name">composite_key</tt> <tt class="py-op">)</tt> </tt>
<a name="L170"></a><tt class="py-lineno">170</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-string">';\n'</tt> </tt>
<a name="L171"></a><tt class="py-lineno">171</tt> <tt class="py-line"> </tt>
<a name="L172"></a><tt class="py-lineno">172</tt> <tt class="py-line"> <tt class="py-name">composite_key</tt> <tt class="py-op">=</tt> <tt class="py-string">'c_'</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">reactor</tt> <tt class="py-op">)</tt> </tt>
<a name="L173"></a><tt class="py-lineno">173</tt> <tt class="py-line"> <tt class="py-name">num_catalysts</tt> <tt class="py-op">=</tt> <tt id="link-45" class="py-name"><a title="Bio.ECell.Record.get_entry
Bio.Mindy.FlatDB.BisectFile.get_entry" class="py-name" href="#" onclick="return doclink('link-45', 'get_entry', 'link-11');">get_entry</a></tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">_max_dict</tt><tt class="py-op">,</tt> <tt class="py-name">composite_key</tt> <tt class="py-op">)</tt> </tt>
<a name="L174"></a><tt class="py-lineno">174</tt> <tt class="py-line"> <tt class="py-keyword">for</tt> <tt class="py-name">catalyst</tt> <tt class="py-keyword">in</tt> <tt class="py-name">range</tt><tt class="py-op">(</tt> <tt class="py-number">1</tt><tt class="py-op">,</tt> <tt class="py-name">num_catalysts</tt> <tt class="py-op">+</tt> <tt class="py-number">1</tt> <tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
<a name="L175"></a><tt class="py-lineno">175</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-string">'\tCatalyst '</tt> </tt>
<a name="L176"></a><tt class="py-lineno">176</tt> <tt class="py-line"> <tt class="py-name">composite_key</tt> <tt class="py-op">=</tt> <tt id="link-46" class="py-name"><a title="Bio.DocSQL.Query.prefix" class="py-name" href="#" onclick="return doclink('link-46', 'prefix', 'link-26');">prefix</a></tt> <tt class="py-op">+</tt> <tt class="py-string">'c_path'</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">catalyst</tt> <tt class="py-op">)</tt> </tt>
<a name="L177"></a><tt class="py-lineno">177</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt id="link-47" class="py-name"><a title="Bio.ECell.Record.get_entry
Bio.Mindy.FlatDB.BisectFile.get_entry" class="py-name" href="#" onclick="return doclink('link-47', 'get_entry', 'link-11');">get_entry</a></tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt><tt class="py-op">,</tt> <tt class="py-name">composite_key</tt> <tt class="py-op">)</tt> </tt>
<a name="L178"></a><tt class="py-lineno">178</tt> <tt class="py-line"> <tt class="py-name">composite_key</tt> <tt class="py-op">=</tt> <tt id="link-48" class="py-name"><a title="Bio.DocSQL.Query.prefix" class="py-name" href="#" onclick="return doclink('link-48', 'prefix', 'link-26');">prefix</a></tt> <tt class="py-op">+</tt> <tt class="py-string">'c_id'</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">catalyst</tt> <tt class="py-op">)</tt> </tt>
<a name="L179"></a><tt class="py-lineno">179</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-string">':%s'</tt> <tt class="py-op">%</tt> <tt id="link-49" class="py-name"><a title="Bio.ECell.Record.get_entry
Bio.Mindy.FlatDB.BisectFile.get_entry" class="py-name" href="#" onclick="return doclink('link-49', 'get_entry', 'link-11');">get_entry</a></tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt><tt class="py-op">,</tt> <tt class="py-name">composite_key</tt> <tt class="py-op">)</tt> </tt>
<a name="L180"></a><tt class="py-lineno">180</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-string">';\n'</tt> </tt>
<a name="L181"></a><tt class="py-lineno">181</tt> <tt class="py-line"> </tt>
<a name="L182"></a><tt class="py-lineno">182</tt> <tt class="py-line"> <tt class="py-name">composite_key</tt> <tt class="py-op">=</tt> <tt class="py-string">'e_'</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">reactor</tt> <tt class="py-op">)</tt> </tt>
<a name="L183"></a><tt class="py-lineno">183</tt> <tt class="py-line"> <tt class="py-name">num_effectors</tt> <tt class="py-op">=</tt> <tt id="link-50" class="py-name"><a title="Bio.ECell.Record.get_entry
Bio.Mindy.FlatDB.BisectFile.get_entry" class="py-name" href="#" onclick="return doclink('link-50', 'get_entry', 'link-11');">get_entry</a></tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">_max_dict</tt><tt class="py-op">,</tt> <tt class="py-name">composite_key</tt> <tt class="py-op">)</tt> </tt>
<a name="L184"></a><tt class="py-lineno">184</tt> <tt class="py-line"> <tt class="py-keyword">for</tt> <tt class="py-name">effector</tt> <tt class="py-keyword">in</tt> <tt class="py-name">range</tt><tt class="py-op">(</tt> <tt class="py-number">1</tt><tt class="py-op">,</tt> <tt class="py-name">num_effectors</tt> <tt class="py-op">+</tt> <tt class="py-number">1</tt> <tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
<a name="L185"></a><tt class="py-lineno">185</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-string">'\tEffector '</tt> </tt>
<a name="L186"></a><tt class="py-lineno">186</tt> <tt class="py-line"> <tt class="py-name">composite_key</tt> <tt class="py-op">=</tt> <tt id="link-51" class="py-name"><a title="Bio.DocSQL.Query.prefix" class="py-name" href="#" onclick="return doclink('link-51', 'prefix', 'link-26');">prefix</a></tt> <tt class="py-op">+</tt> <tt class="py-string">'e_path'</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">effector</tt> <tt class="py-op">)</tt> </tt>
<a name="L187"></a><tt class="py-lineno">187</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt id="link-52" class="py-name"><a title="Bio.ECell.Record.get_entry
Bio.Mindy.FlatDB.BisectFile.get_entry" class="py-name" href="#" onclick="return doclink('link-52', 'get_entry', 'link-11');">get_entry</a></tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt><tt class="py-op">,</tt> <tt class="py-name">composite_key</tt> <tt class="py-op">)</tt> </tt>
<a name="L188"></a><tt class="py-lineno">188</tt> <tt class="py-line"> <tt class="py-name">composite_key</tt> <tt class="py-op">=</tt> <tt id="link-53" class="py-name"><a title="Bio.DocSQL.Query.prefix" class="py-name" href="#" onclick="return doclink('link-53', 'prefix', 'link-26');">prefix</a></tt> <tt class="py-op">+</tt> <tt class="py-string">'e_id'</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">effector</tt> <tt class="py-op">)</tt> </tt>
<a name="L189"></a><tt class="py-lineno">189</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-string">':%s '</tt> <tt class="py-op">%</tt> <tt id="link-54" class="py-name"><a title="Bio.ECell.Record.get_entry
Bio.Mindy.FlatDB.BisectFile.get_entry" class="py-name" href="#" onclick="return doclink('link-54', 'get_entry', 'link-11');">get_entry</a></tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt><tt class="py-op">,</tt> <tt class="py-name">composite_key</tt> <tt class="py-op">)</tt> </tt>
<a name="L190"></a><tt class="py-lineno">190</tt> <tt class="py-line"> <tt class="py-name">composite_key</tt> <tt class="py-op">=</tt> <tt id="link-55" class="py-name"><a title="Bio.DocSQL.Query.prefix" class="py-name" href="#" onclick="return doclink('link-55', 'prefix', 'link-26');">prefix</a></tt> <tt class="py-op">+</tt> <tt class="py-string">'e_coeff'</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">effector</tt> <tt class="py-op">)</tt> </tt>
<a name="L191"></a><tt class="py-lineno">191</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-string">'%s;\n'</tt> <tt class="py-op">%</tt> <tt id="link-56" class="py-name"><a title="Bio.ECell.Record.get_entry
Bio.Mindy.FlatDB.BisectFile.get_entry" class="py-name" href="#" onclick="return doclink('link-56', 'get_entry', 'link-11');">get_entry</a></tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt><tt class="py-op">,</tt> <tt class="py-name">composite_key</tt> <tt class="py-op">)</tt> </tt>
<a name="L192"></a><tt class="py-lineno">192</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-string">';\n'</tt> </tt>
<a name="L193"></a><tt class="py-lineno">193</tt> <tt class="py-line"> </tt>
<a name="L194"></a><tt class="py-lineno">194</tt> <tt class="py-line"> <tt class="py-name">composite_key</tt> <tt class="py-op">=</tt> <tt class="py-string">'o_'</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">reactor</tt> <tt class="py-op">)</tt> </tt>
<a name="L195"></a><tt class="py-lineno">195</tt> <tt class="py-line"> <tt class="py-name">num_options</tt> <tt class="py-op">=</tt> <tt id="link-57" class="py-name"><a title="Bio.ECell.Record.get_entry
Bio.Mindy.FlatDB.BisectFile.get_entry" class="py-name" href="#" onclick="return doclink('link-57', 'get_entry', 'link-11');">get_entry</a></tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">_max_dict</tt><tt class="py-op">,</tt> <tt class="py-name">composite_key</tt> <tt class="py-op">)</tt> </tt>
<a name="L196"></a><tt class="py-lineno">196</tt> <tt class="py-line"> <tt class="py-keyword">for</tt> <tt class="py-name">option</tt> <tt class="py-keyword">in</tt> <tt class="py-name">range</tt><tt class="py-op">(</tt> <tt class="py-number">1</tt><tt class="py-op">,</tt> <tt class="py-name">num_options</tt> <tt class="py-op">+</tt> <tt class="py-number">1</tt> <tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
<a name="L197"></a><tt class="py-lineno">197</tt> <tt class="py-line"> <tt class="py-name">composite_key</tt> <tt class="py-op">=</tt> <tt id="link-58" class="py-name"><a title="Bio.DocSQL.Query.prefix" class="py-name" href="#" onclick="return doclink('link-58', 'prefix', 'link-26');">prefix</a></tt> <tt class="py-op">+</tt> <tt class="py-string">'o_type'</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">option</tt> <tt class="py-op">)</tt> </tt>
<a name="L198"></a><tt class="py-lineno">198</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-string">'\t%s '</tt> <tt class="py-op">%</tt> <tt id="link-59" class="py-name"><a title="Bio.ECell.Record.get_entry
Bio.Mindy.FlatDB.BisectFile.get_entry" class="py-name" href="#" onclick="return doclink('link-59', 'get_entry', 'link-11');">get_entry</a></tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt><tt class="py-op">,</tt> <tt class="py-name">composite_key</tt> <tt class="py-op">)</tt> </tt>
<a name="L199"></a><tt class="py-lineno">199</tt> <tt class="py-line"> <tt class="py-name">composite_key</tt> <tt class="py-op">=</tt> <tt id="link-60" class="py-name"><a title="Bio.DocSQL.Query.prefix" class="py-name" href="#" onclick="return doclink('link-60', 'prefix', 'link-26');">prefix</a></tt> <tt class="py-op">+</tt> <tt class="py-string">'o_path'</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">option</tt> <tt class="py-op">)</tt> </tt>
<a name="L200"></a><tt class="py-lineno">200</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt id="link-61" class="py-name"><a title="Bio.ECell.Record.get_entry
Bio.Mindy.FlatDB.BisectFile.get_entry" class="py-name" href="#" onclick="return doclink('link-61', 'get_entry', 'link-11');">get_entry</a></tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt><tt class="py-op">,</tt> <tt class="py-name">composite_key</tt> <tt class="py-op">)</tt> </tt>
<a name="L201"></a><tt class="py-lineno">201</tt> <tt class="py-line"> <tt class="py-name">composite_key</tt> <tt class="py-op">=</tt> <tt id="link-62" class="py-name"><a title="Bio.DocSQL.Query.prefix" class="py-name" href="#" onclick="return doclink('link-62', 'prefix', 'link-26');">prefix</a></tt> <tt class="py-op">+</tt> <tt class="py-string">'o_id'</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">option</tt> <tt class="py-op">)</tt> </tt>
<a name="L202"></a><tt class="py-lineno">202</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-string">':%s '</tt> <tt class="py-op">%</tt> <tt id="link-63" class="py-name"><a title="Bio.ECell.Record.get_entry
Bio.Mindy.FlatDB.BisectFile.get_entry" class="py-name" href="#" onclick="return doclink('link-63', 'get_entry', 'link-11');">get_entry</a></tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt><tt class="py-op">,</tt> <tt class="py-name">composite_key</tt> <tt class="py-op">)</tt> </tt>
<a name="L203"></a><tt class="py-lineno">203</tt> <tt class="py-line"> <tt class="py-name">composite_key</tt> <tt class="py-op">=</tt> <tt id="link-64" class="py-name"><a title="Bio.DocSQL.Query.prefix" class="py-name" href="#" onclick="return doclink('link-64', 'prefix', 'link-26');">prefix</a></tt> <tt class="py-op">+</tt> <tt class="py-string">'o_coeff'</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">option</tt> <tt class="py-op">)</tt> </tt>
<a name="L204"></a><tt class="py-lineno">204</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-string">'%s;\n'</tt> <tt class="py-op">%</tt> <tt id="link-65" class="py-name"><a title="Bio.ECell.Record.get_entry
Bio.Mindy.FlatDB.BisectFile.get_entry" class="py-name" href="#" onclick="return doclink('link-65', 'get_entry', 'link-11');">get_entry</a></tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt><tt class="py-op">,</tt> <tt class="py-name">composite_key</tt> <tt class="py-op">)</tt> </tt>
<a name="L205"></a><tt class="py-lineno">205</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-string">';\n'</tt> </tt>
<a name="L206"></a><tt class="py-lineno">206</tt> <tt class="py-line"> </tt>
<a name="L207"></a><tt class="py-lineno">207</tt> <tt class="py-line"> <tt class="py-name">composite_key</tt> <tt class="py-op">=</tt> <tt class="py-string">'arg_tag'</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">reactor</tt> <tt class="py-op">)</tt> </tt>
<a name="L208"></a><tt class="py-lineno">208</tt> <tt class="py-line"> <tt class="py-name">num_args</tt> <tt class="py-op">=</tt> <tt id="link-66" class="py-name"><a title="Bio.ECell.Record.get_entry
Bio.Mindy.FlatDB.BisectFile.get_entry" class="py-name" href="#" onclick="return doclink('link-66', 'get_entry', 'link-11');">get_entry</a></tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">_max_dict</tt><tt class="py-op">,</tt> <tt class="py-name">composite_key</tt> <tt class="py-op">)</tt> </tt>
<a name="L209"></a><tt class="py-lineno">209</tt> <tt class="py-line"> <tt class="py-keyword">for</tt> <tt class="py-name">arg</tt> <tt class="py-keyword">in</tt> <tt class="py-name">range</tt><tt class="py-op">(</tt> <tt class="py-number">1</tt><tt class="py-op">,</tt> <tt class="py-name">num_args</tt> <tt class="py-op">+</tt> <tt class="py-number">1</tt> <tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
<a name="L210"></a><tt class="py-lineno">210</tt> <tt class="py-line"> <tt class="py-name">composite_key</tt> <tt class="py-op">=</tt> <tt id="link-67" class="py-name"><a title="Bio.DocSQL.Query.prefix" class="py-name" href="#" onclick="return doclink('link-67', 'prefix', 'link-26');">prefix</a></tt> <tt class="py-op">+</tt> <tt class="py-string">'arg_tag'</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">arg</tt> <tt class="py-op">)</tt> </tt>
<a name="L211"></a><tt class="py-lineno">211</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-string">'\t%s '</tt> <tt class="py-op">%</tt> <tt id="link-68" class="py-name"><a title="Bio.ECell.Record.get_entry
Bio.Mindy.FlatDB.BisectFile.get_entry" class="py-name" href="#" onclick="return doclink('link-68', 'get_entry', 'link-11');">get_entry</a></tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt><tt class="py-op">,</tt> <tt class="py-name">composite_key</tt> <tt class="py-op">)</tt> </tt>
<a name="L212"></a><tt class="py-lineno">212</tt> <tt class="py-line"> <tt class="py-name">composite_key</tt> <tt class="py-op">=</tt> <tt id="link-69" class="py-name"><a title="Bio.DocSQL.Query.prefix" class="py-name" href="#" onclick="return doclink('link-69', 'prefix', 'link-26');">prefix</a></tt> <tt class="py-op">+</tt> <tt class="py-string">'arg_coeff'</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">arg</tt> <tt class="py-op">)</tt> </tt>
<a name="L213"></a><tt class="py-lineno">213</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-string">'%s;\n'</tt> <tt class="py-op">%</tt> <tt id="link-70" class="py-name"><a title="Bio.ECell.Record.get_entry
Bio.Mindy.FlatDB.BisectFile.get_entry" class="py-name" href="#" onclick="return doclink('link-70', 'get_entry', 'link-11');">get_entry</a></tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt><tt class="py-op">,</tt> <tt class="py-name">composite_key</tt> <tt class="py-op">)</tt> </tt>
<a name="L214"></a><tt class="py-lineno">214</tt> <tt class="py-line"> </tt>
<a name="L215"></a><tt class="py-lineno">215</tt> <tt class="py-line"> <tt class="py-keyword">for</tt> <tt class="py-name">system</tt> <tt class="py-keyword">in</tt> <tt class="py-name">range</tt><tt class="py-op">(</tt> <tt class="py-number">1</tt><tt class="py-op">,</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">num_systems</tt> <tt class="py-op">+</tt> <tt class="py-number">1</tt> <tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
<a name="L216"></a><tt class="py-lineno">216</tt> <tt class="py-line"> <tt class="py-name">path_key</tt> <tt class="py-op">=</tt> <tt id="link-71" class="py-name"><a title="Bio.DocSQL.Query.prefix" class="py-name" href="#" onclick="return doclink('link-71', 'prefix', 'link-26');">prefix</a></tt> <tt class="py-op">+</tt> <tt class="py-string">'path0'</tt> </tt>
<a name="L217"></a><tt class="py-lineno">217</tt> <tt class="py-line"> <tt class="py-name">id_key</tt> <tt class="py-op">=</tt> <tt id="link-72" class="py-name"><a title="Bio.DocSQL.Query.prefix" class="py-name" href="#" onclick="return doclink('link-72', 'prefix', 'link-26');">prefix</a></tt> <tt class="py-op">+</tt> <tt class="py-string">'id0'</tt> </tt>
<a name="L218"></a><tt class="py-lineno">218</tt> <tt class="py-line"> <tt class="py-name">reactor_path</tt> <tt class="py-op">=</tt> <tt id="link-73" class="py-name"><a title="Bio.ECell.Record.get_entry
Bio.Mindy.FlatDB.BisectFile.get_entry" class="py-name" href="#" onclick="return doclink('link-73', 'get_entry', 'link-11');">get_entry</a></tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt><tt class="py-op">,</tt> <tt class="py-name">path_key</tt> <tt class="py-op">)</tt> </tt>
<a name="L219"></a><tt class="py-lineno">219</tt> <tt class="py-line"> <tt class="py-name">reactor_id</tt> <tt class="py-op">=</tt> <tt id="link-74" class="py-name"><a title="Bio.ECell.Record.get_entry
Bio.Mindy.FlatDB.BisectFile.get_entry" class="py-name" href="#" onclick="return doclink('link-74', 'get_entry', 'link-11');">get_entry</a></tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt><tt class="py-op">,</tt> <tt class="py-name">id_key</tt> <tt class="py-op">)</tt> </tt>
<a name="L220"></a><tt class="py-lineno">220</tt> <tt class="py-line"> <tt class="py-name">path_id</tt> <tt class="py-op">=</tt> <tt class="py-string">'%s:%s'</tt> <tt class="py-op">%</tt> <tt class="py-op">(</tt> <tt class="py-name">reactor_path</tt><tt class="py-op">,</tt> <tt class="py-name">reactor_id</tt> <tt class="py-op">)</tt> </tt>
<a name="L221"></a><tt class="py-lineno">221</tt> <tt class="py-line"> <tt class="py-name">volume_key</tt> <tt class="py-op">=</tt> <tt class="py-string">'system'</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">system</tt> <tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt class="py-string">'volumeindex0'</tt> </tt>
<a name="L222"></a><tt class="py-lineno">222</tt> <tt class="py-line"> <tt class="py-name">volume_index</tt> <tt class="py-op">=</tt> <tt id="link-75" class="py-name"><a title="Bio.ECell.Record.get_entry
Bio.Mindy.FlatDB.BisectFile.get_entry" class="py-name" href="#" onclick="return doclink('link-75', 'get_entry', 'link-11');">get_entry</a></tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt><tt class="py-op">,</tt> <tt class="py-name">volume_key</tt> <tt class="py-op">)</tt> </tt>
<a name="L223"></a><tt class="py-lineno">223</tt> <tt class="py-line"> <tt class="py-keyword">if</tt><tt class="py-op">(</tt> <tt class="py-name">path_id</tt> <tt class="py-op">==</tt> <tt class="py-name">volume_index</tt> <tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
<a name="L224"></a><tt class="py-lineno">224</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-string">'\tInitialActivity '</tt> </tt>
<a name="L225"></a><tt class="py-lineno">225</tt> <tt class="py-line"> <tt class="py-name">init_act_key</tt> <tt class="py-op">=</tt> <tt id="link-76" class="py-name"><a title="Bio.DocSQL.Query.prefix" class="py-name" href="#" onclick="return doclink('link-76', 'prefix', 'link-26');">prefix</a></tt> <tt class="py-op">+</tt> <tt class="py-string">'init_act0'</tt> </tt>
<a name="L226"></a><tt class="py-lineno">226</tt> <tt class="py-line"> <tt class="py-name">init_act0</tt> <tt class="py-op">=</tt> <tt id="link-77" class="py-name"><a title="Bio.ECell.Record.get_entry
Bio.Mindy.FlatDB.BisectFile.get_entry" class="py-name" href="#" onclick="return doclink('link-77', 'get_entry', 'link-11');">get_entry</a></tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt><tt class="py-op">,</tt> <tt class="py-name">init_act_key</tt> <tt class="py-op">)</tt> </tt>
<a name="L227"></a><tt class="py-lineno">227</tt> <tt class="py-line"> <tt class="py-keyword">if</tt><tt class="py-op">(</tt> <tt class="py-name">init_act0</tt> <tt class="py-op">==</tt> <tt class="py-string">''</tt> <tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
<a name="L228"></a><tt class="py-lineno">228</tt> <tt class="py-line"> <tt class="py-name">init_act0</tt> <tt class="py-op">=</tt> <tt id="link-78" class="py-name"><a title="Bio.ECell.Record.get_entry
Bio.Mindy.FlatDB.BisectFile.get_entry" class="py-name" href="#" onclick="return doclink('link-78', 'get_entry', 'link-11');">get_entry</a></tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt><tt class="py-op">,</tt> <tt id="link-79" class="py-name"><a title="Bio.DocSQL.Query.prefix" class="py-name" href="#" onclick="return doclink('link-79', 'prefix', 'link-26');">prefix</a></tt> <tt class="py-op">+</tt> <tt class="py-string">'init_act1'</tt> <tt class="py-op">)</tt> </tt>
<a name="L229"></a><tt class="py-lineno">229</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-string">'%s;\n'</tt> <tt class="py-op">%</tt> <tt class="py-name">init_act0</tt> </tt>
<a name="L230"></a><tt class="py-lineno">230</tt> <tt class="py-line"> <tt class="py-keyword">if</tt><tt class="py-op">(</tt> <tt class="py-keyword">not</tt> <tt class="py-op">(</tt> <tt class="py-name">system</tt> <tt class="py-keyword">in</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">_duplicates</tt> <tt class="py-op">)</tt> <tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
<a name="L231"></a><tt class="py-lineno">231</tt> <tt class="py-line"> <tt class="py-name">volume_buf</tt> <tt class="py-op">=</tt> <tt class="py-name">volume_buf</tt> <tt class="py-op">+</tt> <tt class="py-string">R'_SETVOLUME('</tt> </tt>
<a name="L232"></a><tt class="py-lineno">232</tt> <tt class="py-line"> <tt class="py-name">volume_buf</tt> <tt class="py-op">=</tt> <tt class="py-name">volume_buf</tt> <tt class="py-op">+</tt> <tt class="py-string">'%s,%s)\n'</tt> <tt class="py-op">%</tt> <tt class="py-op">(</tt> <tt class="py-name">reactor_path</tt><tt class="py-op">,</tt> <tt class="py-name">init_act0</tt> <tt class="py-op">)</tt> </tt>
<a name="L233"></a><tt class="py-lineno">233</tt> <tt class="py-line"> <tt class="py-name">volume_buf</tt> <tt class="py-op">=</tt> <tt class="py-name">volume_buf</tt><tt class="py-op">.</tt><tt class="py-name">replace</tt><tt class="py-op">(</tt> <tt class="py-string">r'//'</tt><tt class="py-op">,</tt> <tt class="py-string">'\/'</tt> <tt class="py-op">)</tt> </tt>
<a name="L234"></a><tt class="py-lineno">234</tt> <tt class="py-line"> </tt>
<a name="L235"></a><tt class="py-lineno">235</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">output</tt> <tt class="py-op">+</tt> <tt class="py-string">'}\n'</tt> </tt>
<a name="L236"></a><tt class="py-lineno">236</tt> <tt class="py-line"> </tt>
<a name="L237"></a><tt class="py-lineno">237</tt> <tt class="py-line"> <tt class="py-keyword">if</tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">contains_concentration</tt> <tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
<a name="L238"></a><tt class="py-lineno">238</tt> <tt class="py-line"> <tt class="py-name">output</tt> <tt class="py-op">=</tt> <tt class="py-name">volume_buf</tt> <tt class="py-op">+</tt> <tt class="py-name">output</tt> </tt>
<a name="L239"></a><tt class="py-lineno">239</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt class="py-name">output</tt> </tt>
</div><a name="L240"></a><tt class="py-lineno">240</tt> <tt class="py-line"> </tt>
<a name="Record._check_duplicates"></a><div id="Record._check_duplicates-def"><a name="L241"></a><tt class="py-lineno">241</tt> <a class="py-toggle" href="#" id="Record._check_duplicates-toggle" onclick="return toggle('Record._check_duplicates');">-</a><tt class="py-line"> <tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.ECell.Record.Record-class.html#_check_duplicates">_check_duplicates</a><tt class="py-op">(</tt> <tt class="py-param">self</tt> <tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="Record._check_duplicates-collapsed" style="display:none;" pad="+++" indent="++++++++"></div><div id="Record._check_duplicates-expanded"><a name="L242"></a><tt class="py-lineno">242</tt> <tt class="py-line"> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">_duplicates</tt> <tt class="py-op">=</tt> <tt class="py-op">[</tt><tt class="py-op">]</tt> </tt>
<a name="L243"></a><tt class="py-lineno">243</tt> <tt class="py-line"> <tt class="py-keyword">for</tt> <tt class="py-name">system</tt> <tt class="py-keyword">in</tt> <tt class="py-name">range</tt><tt class="py-op">(</tt> <tt class="py-number">1</tt><tt class="py-op">,</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">num_systems</tt> <tt class="py-op">+</tt> <tt class="py-number">1</tt> <tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
<a name="L244"></a><tt class="py-lineno">244</tt> <tt class="py-line"> <tt class="py-name">target_path_key</tt> <tt class="py-op">=</tt> <tt class="py-string">'system'</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">system</tt> <tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt class="py-string">'path0'</tt> </tt>
<a name="L245"></a><tt class="py-lineno">245</tt> <tt class="py-line"> <tt class="py-name">target_id_key</tt> <tt class="py-op">=</tt> <tt class="py-string">'system'</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">system</tt> <tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt class="py-string">'id0'</tt> </tt>
<a name="L246"></a><tt class="py-lineno">246</tt> <tt class="py-line"> <tt class="py-keyword">for</tt> <tt class="py-name">other</tt> <tt class="py-keyword">in</tt> <tt class="py-name">range</tt><tt class="py-op">(</tt> <tt class="py-number">1</tt><tt class="py-op">,</tt> <tt class="py-name">system</tt> <tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
<a name="L247"></a><tt class="py-lineno">247</tt> <tt class="py-line"> <tt class="py-name">match_path_key</tt> <tt class="py-op">=</tt> <tt class="py-string">'system'</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">other</tt> <tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt class="py-string">'path0'</tt> </tt>
<a name="L248"></a><tt class="py-lineno">248</tt> <tt class="py-line"> <tt class="py-name">match_id_key</tt> <tt class="py-op">=</tt> <tt class="py-string">'system'</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">other</tt> <tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt class="py-string">'id0'</tt> </tt>
<a name="L249"></a><tt class="py-lineno">249</tt> <tt class="py-line"> <tt class="py-keyword">if</tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt><tt class="py-op">.</tt><tt id="link-80" class="py-name"><a title="Bio.Crystal.Crystal.has_key
Bio.EUtils.POM.ElementNode.has_key
Bio.GenBank.NCBIDictionary.has_key
Bio.PDB.AbstractPropertyMap.AbstractPropertyMap.has_key
Bio.PDB.FragmentMapper'.FragmentMapper.has_key
Bio.Prosite.ExPASyDictionary.has_key
Bio.Prosite.Prodoc.ExPASyDictionary.has_key
Bio.PubMed.Dictionary.has_key
Bio.SwissProt.SProt.ExPASyDictionary.has_key
Martel.Parser.MartelAttributeList.has_key" class="py-name" href="#" onclick="return doclink('link-80', 'has_key', 'link-7');">has_key</a></tt><tt class="py-op">(</tt> <tt class="py-name">target_path_key</tt> <tt class="py-op">)</tt> <tt class="py-keyword">and</tt> \ </tt>
<a name="L250"></a><tt class="py-lineno">250</tt> <tt class="py-line"> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt><tt class="py-op">.</tt><tt id="link-81" class="py-name"><a title="Bio.Crystal.Crystal.has_key
Bio.EUtils.POM.ElementNode.has_key
Bio.GenBank.NCBIDictionary.has_key
Bio.PDB.AbstractPropertyMap.AbstractPropertyMap.has_key
Bio.PDB.FragmentMapper'.FragmentMapper.has_key
Bio.Prosite.ExPASyDictionary.has_key
Bio.Prosite.Prodoc.ExPASyDictionary.has_key
Bio.PubMed.Dictionary.has_key
Bio.SwissProt.SProt.ExPASyDictionary.has_key
Martel.Parser.MartelAttributeList.has_key" class="py-name" href="#" onclick="return doclink('link-81', 'has_key', 'link-7');">has_key</a></tt><tt class="py-op">(</tt> <tt class="py-name">target_id_key</tt> <tt class="py-op">)</tt> <tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
<a name="L251"></a><tt class="py-lineno">251</tt> <tt class="py-line"> <tt class="py-keyword">if</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt id="link-82" class="py-name" targets="Method Bio.ECell.Record.Record._match_cell_dict_entry()=Bio.ECell.Record.Record-class.html#_match_cell_dict_entry"><a title="Bio.ECell.Record.Record._match_cell_dict_entry" class="py-name" href="#" onclick="return doclink('link-82', '_match_cell_dict_entry', 'link-82');">_match_cell_dict_entry</a></tt><tt class="py-op">(</tt> <tt class="py-name">target_path_key</tt><tt class="py-op">,</tt> <tt class="py-name">match_path_key</tt> <tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
<a name="L252"></a><tt class="py-lineno">252</tt> <tt class="py-line"> <tt class="py-keyword">if</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt id="link-83" class="py-name"><a title="Bio.ECell.Record.Record._match_cell_dict_entry" class="py-name" href="#" onclick="return doclink('link-83', '_match_cell_dict_entry', 'link-82');">_match_cell_dict_entry</a></tt><tt class="py-op">(</tt> <tt class="py-name">target_id_key</tt><tt class="py-op">,</tt> <tt class="py-name">match_id_key</tt> <tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
<a name="L253"></a><tt class="py-lineno">253</tt> <tt class="py-line"> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">_duplicates</tt><tt class="py-op">.</tt><tt id="link-84" class="py-name" targets="Method Bio.Crystal.Chain.append()=Bio.Crystal.Chain-class.html#append,Method Bio.EUtils.POM.ElementNode.append()=Bio.EUtils.POM.ElementNode-class.html#append,Method Bio.EUtils.sourcegen.SourceFile.append()=Bio.EUtils.sourcegen.SourceFile-class.html#append,Method Bio.SCOP.Raf.SeqMap.append()=Bio.SCOP.Raf.SeqMap-class.html#append,Method Bio.Seq.MutableSeq.append()=Bio.Seq.MutableSeq-class.html#append,Method Bio.Wise.psw.Alignment.append()=Bio.Wise.psw.Alignment-class.html#append,Method Bio.Wise.psw.AlignmentColumn.append()=Bio.Wise.psw.AlignmentColumn-class.html#append,Method Martel.msre_parse.SubPattern.append()=Martel.msre_parse.SubPattern-class.html#append"><a title="Bio.Crystal.Chain.append
Bio.EUtils.POM.ElementNode.append
Bio.EUtils.sourcegen.SourceFile.append
Bio.SCOP.Raf.SeqMap.append
Bio.Seq.MutableSeq.append
Bio.Wise.psw.Alignment.append
Bio.Wise.psw.AlignmentColumn.append
Martel.msre_parse.SubPattern.append" class="py-name" href="#" onclick="return doclink('link-84', 'append', 'link-84');">append</a></tt><tt class="py-op">(</tt> <tt class="py-name">system</tt> <tt class="py-op">)</tt> </tt>
</div><a name="L254"></a><tt class="py-lineno">254</tt> <tt class="py-line"> </tt>
<a name="Record._match_cell_dict_entry"></a><div id="Record._match_cell_dict_entry-def"><a name="L255"></a><tt class="py-lineno">255</tt> <a class="py-toggle" href="#" id="Record._match_cell_dict_entry-toggle" onclick="return toggle('Record._match_cell_dict_entry');">-</a><tt class="py-line"> <tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.ECell.Record.Record-class.html#_match_cell_dict_entry">_match_cell_dict_entry</a><tt class="py-op">(</tt> <tt class="py-param">self</tt><tt class="py-op">,</tt> <tt class="py-param">key</tt><tt class="py-op">,</tt> <tt class="py-param">other_key</tt> <tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="Record._match_cell_dict_entry-collapsed" style="display:none;" pad="+++" indent="++++++++"></div><div id="Record._match_cell_dict_entry-expanded"><a name="L256"></a><tt class="py-lineno">256</tt> <tt class="py-line"> <tt class="py-keyword">if</tt><tt class="py-op">(</tt> <tt id="link-85" class="py-name"><a title="Bio.ECell.Record.get_entry
Bio.Mindy.FlatDB.BisectFile.get_entry" class="py-name" href="#" onclick="return doclink('link-85', 'get_entry', 'link-11');">get_entry</a></tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt><tt class="py-op">,</tt> <tt id="link-86" class="py-name" targets="Variable Bio.Translate.key=Bio.Translate-module.html#key"><a title="Bio.Translate.key" class="py-name" href="#" onclick="return doclink('link-86', 'key', 'link-86');">key</a></tt> <tt class="py-op">)</tt> <tt class="py-op">==</tt> <tt id="link-87" class="py-name"><a title="Bio.ECell.Record.get_entry
Bio.Mindy.FlatDB.BisectFile.get_entry" class="py-name" href="#" onclick="return doclink('link-87', 'get_entry', 'link-11');">get_entry</a></tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">cell_dict</tt><tt class="py-op">,</tt> <tt class="py-name">other_key</tt> <tt class="py-op">)</tt> <tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
<a name="L257"></a><tt class="py-lineno">257</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt class="py-number">1</tt> </tt>
<a name="L258"></a><tt class="py-lineno">258</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt class="py-number">0</tt> </tt>
</div></div><a name="L259"></a><tt class="py-lineno">259</tt> <tt class="py-line"> </tt>
<a name="L260"></a><tt class="py-lineno">260</tt> <tt class="py-line"> </tt>
<a name="get_entry"></a><div id="get_entry-def"><a name="L261"></a><tt class="py-lineno">261</tt> <a class="py-toggle" href="#" id="get_entry-toggle" onclick="return toggle('get_entry');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.ECell.Record-module.html#get_entry">get_entry</a><tt class="py-op">(</tt> <tt class="py-param">dict</tt><tt class="py-op">,</tt> <tt class="py-param">key</tt> <tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="get_entry-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="get_entry-expanded"><a name="L262"></a><tt class="py-lineno">262</tt> <tt class="py-line"> <tt class="py-keyword">try</tt><tt class="py-op">:</tt> </tt>
<a name="L263"></a><tt class="py-lineno">263</tt> <tt class="py-line"> <tt class="py-name">entry</tt> <tt class="py-op">=</tt> <tt class="py-name">dict</tt><tt class="py-op">[</tt> <tt id="link-88" class="py-name"><a title="Bio.Translate.key" class="py-name" href="#" onclick="return doclink('link-88', 'key', 'link-86');">key</a></tt> <tt class="py-op">]</tt> </tt>
<a name="L264"></a><tt class="py-lineno">264</tt> <tt class="py-line"> <tt class="py-keyword">except</tt> <tt class="py-name">KeyError</tt><tt class="py-op">:</tt> </tt>
<a name="L265"></a><tt class="py-lineno">265</tt> <tt class="py-line"> <tt class="py-name">entry</tt> <tt class="py-op">=</tt> <tt class="py-string">''</tt> </tt>
<a name="L266"></a><tt class="py-lineno">266</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt class="py-name">entry</tt> </tt>
</div><a name="L267"></a><tt class="py-lineno">267</tt> <tt class="py-line"> </tt><script type="text/javascript">
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