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<a href="Bio-module.html">Package Bio</a> ::
<a href="Bio.MetaTool-module.html">Package MetaTool</a> ::
Module Record
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<h1 class="epydoc">Source Code for <a href="Bio.MetaTool.Record-module.html">Module Bio.MetaTool.Record</a></h1>
<pre class="py-src">
<a name="L1"></a><tt class="py-lineno"> 1</tt> <tt class="py-line"><tt class="py-docstring">"""Hold MetaTool data in a straightforward format.</tt> </tt>
<a name="L2"></a><tt class="py-lineno"> 2</tt> <tt class="py-line"><tt class="py-docstring">"""</tt> </tt>
<a name="L3"></a><tt class="py-lineno"> 3</tt> <tt class="py-line"> </tt>
<a name="L4"></a><tt class="py-lineno"> 4</tt> <tt class="py-line"><tt class="py-comment"># standard modules</tt> </tt>
<a name="L5"></a><tt class="py-lineno"> 5</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="L6"></a><tt class="py-lineno"> 6</tt> <tt class="py-line"> </tt>
<a name="L7"></a><tt class="py-lineno"> 7</tt> <tt class="py-line"><tt class="py-keyword">import</tt> <tt class="py-name">Matrix</tt> </tt>
<a name="L8"></a><tt class="py-lineno"> 8</tt> <tt class="py-line"> </tt>
<a name="L9"></a><tt class="py-lineno"> 9</tt> <tt class="py-line"><tt class="py-comment"># local stuff</tt> </tt>
<a name="L10"></a><tt class="py-lineno"> 10</tt> <tt class="py-line"><tt class="py-comment"></tt><tt class="py-keyword">import</tt> <tt id="link-0" class="py-name" targets="Package Bio=Bio-module.html"><a title="Bio" class="py-name" href="#" onclick="return doclink('link-0', 'Bio', 'link-0');">Bio</a></tt><tt class="py-op">.</tt><tt id="link-1" class="py-name" targets="Package Bio.MetaTool=Bio.MetaTool-module.html"><a title="Bio.MetaTool" class="py-name" href="#" onclick="return doclink('link-1', 'MetaTool', 'link-1');">MetaTool</a></tt> </tt>
<a name="L11"></a><tt class="py-lineno"> 11</tt> <tt class="py-line"> </tt>
<a name="Metabolite"></a><div id="Metabolite-def"><a name="L12"></a><tt class="py-lineno"> 12</tt> <a class="py-toggle" href="#" id="Metabolite-toggle" onclick="return toggle('Metabolite');">-</a><tt class="py-line"><tt class="py-keyword">class</tt> <a class="py-def-name" href="Bio.MetaTool.Record.Metabolite-class.html">Metabolite</a><tt class="py-op">(</tt> <tt class="py-base-class">dict</tt> <tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="Metabolite-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="Metabolite-expanded"><a name="L13"></a><tt class="py-lineno"> 13</tt> <tt class="py-line"> </tt>
<a name="Metabolite.__init__"></a><div id="Metabolite.__init__-def"><a name="L14"></a><tt class="py-lineno"> 14</tt> <a class="py-toggle" href="#" id="Metabolite.__init__-toggle" onclick="return toggle('Metabolite.__init__');">-</a><tt class="py-line"> <tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.MetaTool.Record.Metabolite-class.html#__init__">__init__</a><tt class="py-op">(</tt> <tt class="py-param">self</tt><tt class="py-op">,</tt> <tt class="py-param">reaction_count</tt><tt class="py-op">,</tt> <tt class="py-param">metabolite_name</tt> <tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="Metabolite.__init__-collapsed" style="display:none;" pad="+++" indent="++++++++"></div><div id="Metabolite.__init__-expanded"><a name="L15"></a><tt class="py-lineno"> 15</tt> <tt class="py-line"> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">reaction_count</tt> <tt class="py-op">=</tt> <tt class="py-name">reaction_count</tt> </tt>
<a name="L16"></a><tt class="py-lineno"> 16</tt> <tt class="py-line"> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">metabolite_name</tt> <tt class="py-op">=</tt> <tt class="py-name">metabolite_name</tt> </tt>
</div><a name="L17"></a><tt class="py-lineno"> 17</tt> <tt class="py-line"> </tt>
<a name="Metabolite.__str__"></a><div id="Metabolite.__str__-def"><a name="L18"></a><tt class="py-lineno"> 18</tt> <a class="py-toggle" href="#" id="Metabolite.__str__-toggle" onclick="return toggle('Metabolite.__str__');">-</a><tt class="py-line"> <tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.MetaTool.Record.Metabolite-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="Metabolite.__str__-collapsed" style="display:none;" pad="+++" indent="++++++++"></div><div id="Metabolite.__str__-expanded"><a name="L19"></a><tt class="py-lineno"> 19</tt> <tt class="py-line"> <tt class="py-name">out</tt> <tt class="py-op">=</tt> <tt class="py-string">'%d %s\n'</tt> <tt class="py-op">%</tt> <tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">reaction_count</tt><tt class="py-op">,</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">metabolite_name</tt> <tt class="py-op">)</tt> </tt>
<a name="L20"></a><tt class="py-lineno"> 20</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt class="py-name">out</tt> </tt>
</div></div><a name="L21"></a><tt class="py-lineno"> 21</tt> <tt class="py-line"> </tt>
<a name="MetaboliteRole"></a><div id="MetaboliteRole-def"><a name="L22"></a><tt class="py-lineno"> 22</tt> <a class="py-toggle" href="#" id="MetaboliteRole-toggle" onclick="return toggle('MetaboliteRole');">-</a><tt class="py-line"><tt class="py-keyword">class</tt> <a class="py-def-name" href="Bio.MetaTool.Record.MetaboliteRole-class.html">MetaboliteRole</a><tt class="py-op">(</tt> <tt class="py-base-class">dict</tt> <tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="MetaboliteRole-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="MetaboliteRole-expanded"><a name="L23"></a><tt class="py-lineno"> 23</tt> <tt class="py-line"> </tt>
<a name="MetaboliteRole.__init__"></a><div id="MetaboliteRole.__init__-def"><a name="L24"></a><tt class="py-lineno"> 24</tt> <a class="py-toggle" href="#" id="MetaboliteRole.__init__-toggle" onclick="return toggle('MetaboliteRole.__init__');">-</a><tt class="py-line"> <tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.MetaTool.Record.MetaboliteRole-class.html#__init__">__init__</a><tt class="py-op">(</tt> <tt class="py-param">self</tt><tt class="py-op">,</tt> <tt class="py-param">met</tt><tt class="py-op">,</tt> <tt class="py-param">consumed</tt><tt class="py-op">,</tt> <tt class="py-param">built</tt><tt class="py-op">,</tt> <tt class="py-param">irreversible_vector</tt> <tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="MetaboliteRole.__init__-collapsed" style="display:none;" pad="+++" indent="++++++++"></div><div id="MetaboliteRole.__init__-expanded"><a name="L25"></a><tt class="py-lineno"> 25</tt> <tt class="py-line"> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">met</tt> <tt class="py-op">=</tt> <tt class="py-name">met</tt> </tt>
<a name="L26"></a><tt class="py-lineno"> 26</tt> <tt class="py-line"> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">consumed</tt> <tt class="py-op">=</tt> <tt class="py-name">consumed</tt> </tt>
<a name="L27"></a><tt class="py-lineno"> 27</tt> <tt class="py-line"> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">built</tt> <tt class="py-op">=</tt> <tt class="py-name">built</tt> </tt>
<a name="L28"></a><tt class="py-lineno"> 28</tt> <tt class="py-line"> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt id="link-2" class="py-name" targets="Method Bio.MetaTool._RecordConsumer.irreversible_vector()=Bio.MetaTool._RecordConsumer-class.html#irreversible_vector,Variable Bio.MetaTool.metatool_format.irreversible_vector=Bio.MetaTool.metatool_format-module.html#irreversible_vector"><a title="Bio.MetaTool._RecordConsumer.irreversible_vector
Bio.MetaTool.metatool_format.irreversible_vector" class="py-name" href="#" onclick="return doclink('link-2', 'irreversible_vector', 'link-2');">irreversible_vector</a></tt> <tt class="py-op">=</tt> <tt id="link-3" class="py-name"><a title="Bio.MetaTool._RecordConsumer.irreversible_vector
Bio.MetaTool.metatool_format.irreversible_vector" class="py-name" href="#" onclick="return doclink('link-3', 'irreversible_vector', 'link-2');">irreversible_vector</a></tt> </tt>
</div><a name="L29"></a><tt class="py-lineno"> 29</tt> <tt class="py-line"> </tt>
<a name="MetaboliteRole.__str__"></a><div id="MetaboliteRole.__str__-def"><a name="L30"></a><tt class="py-lineno"> 30</tt> <a class="py-toggle" href="#" id="MetaboliteRole.__str__-toggle" onclick="return toggle('MetaboliteRole.__str__');">-</a><tt class="py-line"> <tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.MetaTool.Record.MetaboliteRole-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="MetaboliteRole.__str__-collapsed" style="display:none;" pad="+++" indent="++++++++"></div><div id="MetaboliteRole.__str__-expanded"><a name="L31"></a><tt class="py-lineno"> 31</tt> <tt class="py-line"> <tt class="py-name">out</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">met</tt> </tt>
<a name="L32"></a><tt class="py-lineno"> 32</tt> <tt class="py-line"> <tt class="py-name">out</tt> <tt class="py-op">=</tt> <tt class="py-name">out</tt> <tt class="py-op">+</tt> <tt class="py-string">'consumed in %d reactions\n'</tt> <tt class="py-op">%</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">consumed</tt> </tt>
<a name="L33"></a><tt class="py-lineno"> 33</tt> <tt class="py-line"> <tt class="py-name">out</tt> <tt class="py-op">=</tt> <tt class="py-name">out</tt> <tt class="py-op">+</tt> <tt class="py-string">'built in %d reactions\n'</tt> <tt class="py-op">%</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">built</tt> </tt>
<a name="L34"></a><tt class="py-lineno"> 34</tt> <tt class="py-line"> <tt class="py-name">out</tt> <tt class="py-op">=</tt> <tt class="py-name">out</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt id="link-4" class="py-name"><a title="Bio.MetaTool._RecordConsumer.irreversible_vector
Bio.MetaTool.metatool_format.irreversible_vector" class="py-name" href="#" onclick="return doclink('link-4', 'irreversible_vector', 'link-2');">irreversible_vector</a></tt> <tt class="py-op">)</tt> </tt>
<a name="L35"></a><tt class="py-lineno"> 35</tt> <tt class="py-line"> <tt class="py-name">out</tt> <tt class="py-op">=</tt> <tt class="py-name">out</tt> <tt class="py-op">+</tt> <tt class="py-string">'\n'</tt> </tt>
<a name="L36"></a><tt class="py-lineno"> 36</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt class="py-name">out</tt> </tt>
</div></div><a name="L37"></a><tt class="py-lineno"> 37</tt> <tt class="py-line"> </tt>
<a name="L38"></a><tt class="py-lineno"> 38</tt> <tt class="py-line"> </tt>
<a name="L39"></a><tt class="py-lineno"> 39</tt> <tt class="py-line"> </tt>
<a name="PathwayTransform"></a><div id="PathwayTransform-def"><a name="L40"></a><tt class="py-lineno"> 40</tt> <a class="py-toggle" href="#" id="PathwayTransform-toggle" onclick="return toggle('PathwayTransform');">-</a><tt class="py-line"><tt class="py-keyword">class</tt> <a class="py-def-name" href="Bio.MetaTool.Record.PathwayTransform-class.html">PathwayTransform</a><tt class="py-op">:</tt> </tt>
</div><div id="PathwayTransform-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="PathwayTransform-expanded"><a name="L41"></a><tt class="py-lineno"> 41</tt> <tt class="py-line"> </tt>
<a name="PathwayTransform.__init__"></a><div id="PathwayTransform.__init__-def"><a name="L42"></a><tt class="py-lineno"> 42</tt> <a class="py-toggle" href="#" id="PathwayTransform.__init__-toggle" onclick="return toggle('PathwayTransform.__init__');">-</a><tt class="py-line"> <tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.MetaTool.Record.PathwayTransform-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="PathwayTransform.__init__-collapsed" style="display:none;" pad="+++" indent="++++++++"></div><div id="PathwayTransform.__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 id="link-5" class="py-name" targets="Method Bio.Blast.NCBIStandalone._ParametersConsumer.matrix()=Bio.Blast.NCBIStandalone._ParametersConsumer-class.html#matrix,Variable Bio.MetaTool.metatool_format.matrix=Bio.MetaTool.metatool_format-module.html#matrix,Method Bio.Prosite._RecordConsumer.matrix()=Bio.Prosite._RecordConsumer-class.html#matrix"><a title="Bio.Blast.NCBIStandalone._ParametersConsumer.matrix
Bio.MetaTool.metatool_format.matrix
Bio.Prosite._RecordConsumer.matrix" class="py-name" href="#" onclick="return doclink('link-5', 'matrix', 'link-5');">matrix</a></tt> <tt class="py-op">=</tt> <tt class="py-name">None</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">enzymes</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 id="link-6" class="py-name" targets="Method Bio.Pathway.System.reactions()=Bio.Pathway.System-class.html#reactions"><a title="Bio.Pathway.System.reactions" class="py-name" href="#" onclick="return doclink('link-6', 'reactions', 'link-6');">reactions</a></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 id="link-7" class="py-name"><a title="Bio.MetaTool._RecordConsumer.irreversible_vector
Bio.MetaTool.metatool_format.irreversible_vector" class="py-name" href="#" onclick="return doclink('link-7', 'irreversible_vector', 'link-2');">irreversible_vector</a></tt> <tt class="py-op">=</tt> <tt class="py-op">[</tt><tt class="py-op">]</tt> </tt>
</div><a name="L47"></a><tt class="py-lineno"> 47</tt> <tt class="py-line"> </tt>
<a name="PathwayTransform.__str__"></a><div id="PathwayTransform.__str__-def"><a name="L48"></a><tt class="py-lineno"> 48</tt> <a class="py-toggle" href="#" id="PathwayTransform.__str__-toggle" onclick="return toggle('PathwayTransform.__str__');">-</a><tt class="py-line"> <tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.MetaTool.Record.PathwayTransform-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="PathwayTransform.__str__-collapsed" style="display:none;" pad="+++" indent="++++++++"></div><div id="PathwayTransform.__str__-expanded"><a name="L49"></a><tt class="py-lineno"> 49</tt> <tt class="py-line"> <tt class="py-name">out</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">out</tt> <tt class="py-op">=</tt> <tt class="py-name">out</tt> <tt class="py-op">+</tt> <tt class="py-string">'\nMatrix\n'</tt> </tt>
<a name="L51"></a><tt class="py-lineno"> 51</tt> <tt class="py-line"> <tt class="py-name">out</tt> <tt class="py-op">=</tt> <tt class="py-name">out</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt id="link-8" class="py-name"><a title="Bio.Blast.NCBIStandalone._ParametersConsumer.matrix
Bio.MetaTool.metatool_format.matrix
Bio.Prosite._RecordConsumer.matrix" class="py-name" href="#" onclick="return doclink('link-8', 'matrix', 'link-5');">matrix</a></tt> <tt class="py-op">)</tt> </tt>
<a name="L52"></a><tt class="py-lineno"> 52</tt> <tt class="py-line"> <tt class="py-keyword">if</tt><tt class="py-op">(</tt> <tt class="py-name">len</tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">enzymes</tt> <tt class="py-op">)</tt> <tt class="py-op">></tt> <tt class="py-number">0</tt> <tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
<a name="L53"></a><tt class="py-lineno"> 53</tt> <tt class="py-line"> <tt class="py-name">out</tt> <tt class="py-op">=</tt> <tt class="py-name">out</tt> <tt class="py-op">+</tt> <tt class="py-string">'\n Enzymes\n'</tt> </tt>
<a name="L54"></a><tt class="py-lineno"> 54</tt> <tt class="py-line"> <tt class="py-keyword">for</tt> <tt id="link-9" class="py-name" targets="Method Bio.MetaTool._RecordConsumer.enzyme()=Bio.MetaTool._RecordConsumer-class.html#enzyme,Variable Bio.MetaTool.metatool_format.enzyme=Bio.MetaTool.metatool_format-module.html#enzyme"><a title="Bio.MetaTool._RecordConsumer.enzyme
Bio.MetaTool.metatool_format.enzyme" class="py-name" href="#" onclick="return doclink('link-9', 'enzyme', 'link-9');">enzyme</a></tt> <tt class="py-keyword">in</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">enzymes</tt><tt class="py-op">:</tt> </tt>
<a name="L55"></a><tt class="py-lineno"> 55</tt> <tt class="py-line"> <tt class="py-name">out</tt> <tt class="py-op">=</tt> <tt class="py-name">out</tt> <tt class="py-op">+</tt> <tt class="py-string">'%s\n'</tt> <tt class="py-op">%</tt> <tt id="link-10" class="py-name"><a title="Bio.MetaTool._RecordConsumer.enzyme
Bio.MetaTool.metatool_format.enzyme" class="py-name" href="#" onclick="return doclink('link-10', 'enzyme', 'link-9');">enzyme</a></tt> </tt>
<a name="L56"></a><tt class="py-lineno"> 56</tt> <tt class="py-line"> <tt class="py-keyword">if</tt><tt class="py-op">(</tt> <tt class="py-name">len</tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt id="link-11" class="py-name"><a title="Bio.Pathway.System.reactions" class="py-name" href="#" onclick="return doclink('link-11', 'reactions', 'link-6');">reactions</a></tt> <tt class="py-op">)</tt> <tt class="py-op">></tt> <tt class="py-number">0</tt> <tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
<a name="L57"></a><tt class="py-lineno"> 57</tt> <tt class="py-line"> <tt class="py-name">out</tt> <tt class="py-op">=</tt> <tt class="py-name">out</tt> <tt class="py-op">+</tt> <tt class="py-string">'\n Reactions\n'</tt> </tt>
<a name="L58"></a><tt class="py-lineno"> 58</tt> <tt class="py-line"> <tt class="py-keyword">for</tt> <tt id="link-12" class="py-name" targets="Method Bio.MetaTool._RecordConsumer.reaction()=Bio.MetaTool._RecordConsumer-class.html#reaction,Variable Bio.MetaTool.metatool_format.reaction=Bio.MetaTool.metatool_format-module.html#reaction"><a title="Bio.MetaTool._RecordConsumer.reaction
Bio.MetaTool.metatool_format.reaction" class="py-name" href="#" onclick="return doclink('link-12', 'reaction', 'link-12');">reaction</a></tt> <tt class="py-keyword">in</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt id="link-13" class="py-name"><a title="Bio.Pathway.System.reactions" class="py-name" href="#" onclick="return doclink('link-13', 'reactions', 'link-6');">reactions</a></tt><tt class="py-op">:</tt> </tt>
<a name="L59"></a><tt class="py-lineno"> 59</tt> <tt class="py-line"> <tt class="py-name">out</tt> <tt class="py-op">=</tt> <tt class="py-name">out</tt> <tt class="py-op">+</tt> <tt class="py-string">'%s\n'</tt> <tt class="py-op">%</tt> <tt id="link-14" class="py-name"><a title="Bio.MetaTool._RecordConsumer.reaction
Bio.MetaTool.metatool_format.reaction" class="py-name" href="#" onclick="return doclink('link-14', 'reaction', 'link-12');">reaction</a></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">len</tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt id="link-15" class="py-name"><a title="Bio.MetaTool._RecordConsumer.irreversible_vector
Bio.MetaTool.metatool_format.irreversible_vector" class="py-name" href="#" onclick="return doclink('link-15', 'irreversible_vector', 'link-2');">irreversible_vector</a></tt> <tt class="py-op">)</tt> <tt class="py-op">></tt> <tt class="py-number">0</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">out</tt> <tt class="py-op">=</tt> <tt class="py-name">out</tt> <tt class="py-op">+</tt> <tt class="py-string">'\n\nIrreversible\n\n'</tt> </tt>
<a name="L62"></a><tt class="py-lineno"> 62</tt> <tt class="py-line"> <tt class="py-keyword">for</tt> <tt class="py-name">scalar</tt> <tt class="py-keyword">in</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt id="link-16" class="py-name"><a title="Bio.MetaTool._RecordConsumer.irreversible_vector
Bio.MetaTool.metatool_format.irreversible_vector" class="py-name" href="#" onclick="return doclink('link-16', 'irreversible_vector', 'link-2');">irreversible_vector</a></tt><tt class="py-op">:</tt> </tt>
<a name="L63"></a><tt class="py-lineno"> 63</tt> <tt class="py-line"> <tt class="py-name">out</tt> <tt class="py-op">=</tt> <tt class="py-name">out</tt> <tt class="py-op">+</tt> <tt class="py-string">'%03d '</tt> <tt class="py-op">%</tt> <tt class="py-name">int</tt><tt class="py-op">(</tt> <tt class="py-name">scalar</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">out</tt> <tt class="py-op">=</tt> <tt class="py-name">out</tt> <tt class="py-op">+</tt> <tt class="py-string">'\n'</tt> </tt>
<a name="L65"></a><tt class="py-lineno"> 65</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt class="py-name">out</tt> </tt>
</div></div><a name="L66"></a><tt class="py-lineno"> 66</tt> <tt class="py-line"> </tt>
<a name="L67"></a><tt class="py-lineno"> 67</tt> <tt class="py-line"> </tt>
<a name="L68"></a><tt class="py-lineno"> 68</tt> <tt class="py-line"> </tt>
<a name="Record"></a><div id="Record-def"><a name="L69"></a><tt class="py-lineno"> 69</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.MetaTool.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="L70"></a><tt class="py-lineno"> 70</tt> <tt class="py-line"> </tt>
<a name="L71"></a><tt class="py-lineno"> 71</tt> <tt class="py-line"> <tt class="py-docstring">"""Hold MetaTool output information.</tt> </tt>
<a name="L72"></a><tt class="py-lineno"> 72</tt> <tt class="py-line"><tt class="py-docstring"> """</tt> </tt>
<a name="L73"></a><tt class="py-lineno"> 73</tt> <tt class="py-line"> </tt>
<a name="Record.__init__"></a><div id="Record.__init__-def"><a name="L74"></a><tt class="py-lineno"> 74</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.MetaTool.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="L75"></a><tt class="py-lineno"> 75</tt> <tt class="py-line"> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">external_metabolites</tt> <tt class="py-op">=</tt> <tt class="py-op">[</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">self</tt><tt class="py-op">.</tt><tt class="py-name">internal_metabolites</tt> <tt class="py-op">=</tt> <tt class="py-op">[</tt><tt class="py-op">]</tt> </tt>
<a name="L77"></a><tt class="py-lineno"> 77</tt> <tt class="py-line"> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">unbalanced_metabolites</tt> <tt class="py-op">=</tt> <tt class="py-op">[</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">self</tt><tt class="py-op">.</tt><tt class="py-name">branch_metabolites</tt> <tt class="py-op">=</tt> <tt class="py-op">[</tt><tt class="py-op">]</tt> </tt>
<a name="L79"></a><tt class="py-lineno"> 79</tt> <tt class="py-line"> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">non_branch_metabolites</tt> <tt class="py-op">=</tt> <tt class="py-op">[</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">self</tt><tt class="py-op">.</tt><tt class="py-name">sum_is_constant_lines</tt> <tt class="py-op">=</tt> <tt class="py-op">[</tt><tt class="py-op">]</tt> </tt>
<a name="L81"></a><tt class="py-lineno"> 81</tt> <tt class="py-line"> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">stochiometric</tt> <tt class="py-op">=</tt> <tt id="link-17" class="py-name" targets="Class Bio.MetaTool.Record.PathwayTransform=Bio.MetaTool.Record.PathwayTransform-class.html"><a title="Bio.MetaTool.Record.PathwayTransform" class="py-name" href="#" onclick="return doclink('link-17', 'PathwayTransform', 'link-17');">PathwayTransform</a></tt><tt class="py-op">(</tt><tt class="py-op">)</tt> </tt>
<a name="L82"></a><tt class="py-lineno"> 82</tt> <tt class="py-line"> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">kernel</tt> <tt class="py-op">=</tt> <tt id="link-18" class="py-name"><a title="Bio.MetaTool.Record.PathwayTransform" class="py-name" href="#" onclick="return doclink('link-18', 'PathwayTransform', 'link-17');">PathwayTransform</a></tt><tt class="py-op">(</tt><tt class="py-op">)</tt> </tt>
<a name="L83"></a><tt class="py-lineno"> 83</tt> <tt class="py-line"> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">subsets</tt> <tt class="py-op">=</tt> <tt id="link-19" class="py-name"><a title="Bio.MetaTool.Record.PathwayTransform" class="py-name" href="#" onclick="return doclink('link-19', 'PathwayTransform', 'link-17');">PathwayTransform</a></tt><tt class="py-op">(</tt><tt class="py-op">)</tt> </tt>
<a name="L84"></a><tt class="py-lineno"> 84</tt> <tt class="py-line"> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">reduced_system</tt> <tt class="py-op">=</tt> <tt id="link-20" class="py-name"><a title="Bio.MetaTool.Record.PathwayTransform" class="py-name" href="#" onclick="return doclink('link-20', 'PathwayTransform', 'link-17');">PathwayTransform</a></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">self</tt><tt class="py-op">.</tt><tt class="py-name">convex_basis</tt> <tt class="py-op">=</tt> <tt id="link-21" class="py-name"><a title="Bio.MetaTool.Record.PathwayTransform" class="py-name" href="#" onclick="return doclink('link-21', 'PathwayTransform', 'link-17');">PathwayTransform</a></tt><tt class="py-op">(</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">self</tt><tt class="py-op">.</tt><tt class="py-name">conservation_relations</tt> <tt class="py-op">=</tt> <tt id="link-22" class="py-name"><a title="Bio.MetaTool.Record.PathwayTransform" class="py-name" href="#" onclick="return doclink('link-22', 'PathwayTransform', 'link-17');">PathwayTransform</a></tt><tt class="py-op">(</tt><tt class="py-op">)</tt> </tt>
<a name="L87"></a><tt class="py-lineno"> 87</tt> <tt class="py-line"> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">elementary_modes</tt> <tt class="py-op">=</tt> <tt id="link-23" class="py-name"><a title="Bio.MetaTool.Record.PathwayTransform" class="py-name" href="#" onclick="return doclink('link-23', 'PathwayTransform', 'link-17');">PathwayTransform</a></tt><tt class="py-op">(</tt><tt class="py-op">)</tt> </tt>
</div><a name="L88"></a><tt class="py-lineno"> 88</tt> <tt class="py-line"> </tt>
<a name="Record.__str__"></a><div id="Record.__str__-def"><a name="L89"></a><tt class="py-lineno"> 89</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.MetaTool.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="L90"></a><tt class="py-lineno"> 90</tt> <tt class="py-line"> <tt class="py-name">out</tt> <tt class="py-op">=</tt> <tt class="py-string">''</tt> </tt>
<a name="L91"></a><tt class="py-lineno"> 91</tt> <tt class="py-line"> <tt class="py-name">out</tt> <tt class="py-op">=</tt> <tt class="py-name">out</tt> <tt class="py-op">+</tt> <tt class="py-string">'Input file name: %s\n'</tt> <tt class="py-op">%</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt id="link-24" class="py-name" targets="Method Bio.MetaTool._RecordConsumer.input_file_name()=Bio.MetaTool._RecordConsumer-class.html#input_file_name"><a title="Bio.MetaTool._RecordConsumer.input_file_name" class="py-name" href="#" onclick="return doclink('link-24', 'input_file_name', 'link-24');">input_file_name</a></tt> </tt>
<a name="L92"></a><tt class="py-lineno"> 92</tt> <tt class="py-line"> <tt class="py-name">out</tt> <tt class="py-op">=</tt> <tt class="py-name">out</tt> <tt class="py-op">+</tt> <tt class="py-string">'Number of internal metabolites: %d\n'</tt> <tt class="py-op">%</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt id="link-25" class="py-name" targets="Method Bio.MetaTool._RecordConsumer.num_int_metabolites()=Bio.MetaTool._RecordConsumer-class.html#num_int_metabolites"><a title="Bio.MetaTool._RecordConsumer.num_int_metabolites" class="py-name" href="#" onclick="return doclink('link-25', 'num_int_metabolites', 'link-25');">num_int_metabolites</a></tt> </tt>
<a name="L93"></a><tt class="py-lineno"> 93</tt> <tt class="py-line"> <tt class="py-name">out</tt> <tt class="py-op">=</tt> <tt class="py-name">out</tt> <tt class="py-op">+</tt> <tt class="py-string">'Number of reactions: %d\n'</tt> <tt class="py-op">%</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt id="link-26" class="py-name" targets="Method Bio.MetaTool._RecordConsumer.num_reactions()=Bio.MetaTool._RecordConsumer-class.html#num_reactions"><a title="Bio.MetaTool._RecordConsumer.num_reactions" class="py-name" href="#" onclick="return doclink('link-26', 'num_reactions', 'link-26');">num_reactions</a></tt> </tt>
<a name="L94"></a><tt class="py-lineno"> 94</tt> <tt class="py-line"> <tt class="py-name">out</tt> <tt class="py-op">=</tt> <tt class="py-name">out</tt> <tt class="py-op">+</tt> <tt class="py-string">'\n\nExternal Metabolites\n\ncount name\n\n'</tt> </tt>
<a name="L95"></a><tt class="py-lineno"> 95</tt> <tt class="py-line"> <tt class="py-keyword">for</tt> <tt class="py-name">metabolite</tt> <tt class="py-keyword">in</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">external_metabolites</tt><tt class="py-op">:</tt> </tt>
<a name="L96"></a><tt class="py-lineno"> 96</tt> <tt class="py-line"> <tt class="py-name">out</tt> <tt class="py-op">=</tt> <tt class="py-name">out</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">metabolite</tt> <tt class="py-op">)</tt> </tt>
<a name="L97"></a><tt class="py-lineno"> 97</tt> <tt class="py-line"> <tt class="py-name">out</tt> <tt class="py-op">=</tt> <tt class="py-name">out</tt> <tt class="py-op">+</tt> <tt class="py-string">'\n\nInternal Metabolites\n\ncount name\n\n'</tt> </tt>
<a name="L98"></a><tt class="py-lineno"> 98</tt> <tt class="py-line"> <tt class="py-keyword">for</tt> <tt class="py-name">metabolite</tt> <tt class="py-keyword">in</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">internal_metabolites</tt><tt class="py-op">:</tt> </tt>
<a name="L99"></a><tt class="py-lineno"> 99</tt> <tt class="py-line"> <tt class="py-name">out</tt> <tt class="py-op">=</tt> <tt class="py-name">out</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">metabolite</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">out</tt> <tt class="py-op">=</tt> <tt class="py-name">out</tt> <tt class="py-op">+</tt> <tt class="py-string">'\n\nBranch Metabolites\n\n'</tt> </tt>
<a name="L101"></a><tt class="py-lineno">101</tt> <tt class="py-line"> <tt class="py-keyword">for</tt> <tt class="py-name">metabolite</tt> <tt class="py-keyword">in</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">branch_metabolites</tt><tt class="py-op">:</tt> </tt>
<a name="L102"></a><tt class="py-lineno">102</tt> <tt class="py-line"> <tt class="py-name">out</tt> <tt class="py-op">=</tt> <tt class="py-name">out</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">metabolite</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">out</tt> <tt class="py-op">=</tt> <tt class="py-name">out</tt> <tt class="py-op">+</tt> <tt class="py-string">'\n\nNon Branch Metabolites\n\n'</tt> </tt>
<a name="L104"></a><tt class="py-lineno">104</tt> <tt class="py-line"> <tt class="py-keyword">for</tt> <tt class="py-name">metabolite</tt> <tt class="py-keyword">in</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">non_branch_metabolites</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">out</tt> <tt class="py-op">=</tt> <tt class="py-name">out</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">metabolite</tt> <tt class="py-op">)</tt> </tt>
<a name="L106"></a><tt class="py-lineno">106</tt> <tt class="py-line"> <tt class="py-name">out</tt> <tt class="py-op">=</tt> <tt class="py-name">out</tt> <tt class="py-op">+</tt> <tt class="py-string">'\n\nStochiometric\n\n'</tt> </tt>
<a name="L107"></a><tt class="py-lineno">107</tt> <tt class="py-line"> <tt class="py-name">out</tt> <tt class="py-op">=</tt> <tt class="py-name">out</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">stochiometric</tt> <tt class="py-op">)</tt> </tt>
<a name="L108"></a><tt class="py-lineno">108</tt> <tt class="py-line"> <tt class="py-keyword">if</tt><tt class="py-op">(</tt> <tt class="py-name">len</tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">unbalanced_metabolites</tt> <tt class="py-op">)</tt> <tt class="py-op">></tt> <tt class="py-number">0</tt> <tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
<a name="L109"></a><tt class="py-lineno">109</tt> <tt class="py-line"> <tt class="py-name">out</tt> <tt class="py-op">=</tt> <tt class="py-name">out</tt> <tt class="py-op">+</tt> <tt class="py-string">'\n\nUnbalanced Metabolites\n\n'</tt> </tt>
<a name="L110"></a><tt class="py-lineno">110</tt> <tt class="py-line"> <tt class="py-keyword">for</tt> <tt class="py-name">metabolite</tt> <tt class="py-keyword">in</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">unbalanced_metabolites</tt><tt class="py-op">:</tt> </tt>
<a name="L111"></a><tt class="py-lineno">111</tt> <tt class="py-line"> <tt class="py-name">out</tt> <tt class="py-op">=</tt> <tt class="py-name">out</tt> <tt class="py-op">+</tt> <tt class="py-string">'%s\n'</tt> <tt class="py-op">%</tt> <tt class="py-name">metabolite</tt> </tt>
<a name="L112"></a><tt class="py-lineno">112</tt> <tt class="py-line"> <tt class="py-name">out</tt> <tt class="py-op">=</tt> <tt class="py-name">out</tt> <tt class="py-op">+</tt> <tt class="py-string">'\n\nKernel\n\n'</tt> </tt>
<a name="L113"></a><tt class="py-lineno">113</tt> <tt class="py-line"> <tt class="py-name">out</tt> <tt class="py-op">=</tt> <tt class="py-name">out</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">kernel</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">out</tt> <tt class="py-op">=</tt> <tt class="py-name">out</tt> <tt class="py-op">+</tt> <tt class="py-string">'\n\nSubsets\n\n'</tt> </tt>
<a name="L115"></a><tt class="py-lineno">115</tt> <tt class="py-line"> <tt class="py-name">out</tt> <tt class="py-op">=</tt> <tt class="py-name">out</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">subsets</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">out</tt> <tt class="py-op">=</tt> <tt class="py-name">out</tt> <tt class="py-op">+</tt> <tt class="py-string">'\n\nReduced System\n\n'</tt> </tt>
<a name="L117"></a><tt class="py-lineno">117</tt> <tt class="py-line"> <tt class="py-name">out</tt> <tt class="py-op">=</tt> <tt class="py-name">out</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">reduced_system</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">out</tt> <tt class="py-op">=</tt> <tt class="py-name">out</tt> <tt class="py-op">+</tt> <tt class="py-string">'\n\nConvex Basis\n\n'</tt> </tt>
<a name="L119"></a><tt class="py-lineno">119</tt> <tt class="py-line"> <tt class="py-name">out</tt> <tt class="py-op">=</tt> <tt class="py-name">out</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">convex_basis</tt> <tt class="py-op">)</tt> </tt>
<a name="L120"></a><tt class="py-lineno">120</tt> <tt class="py-line"> <tt class="py-name">out</tt> <tt class="py-op">=</tt> <tt class="py-name">out</tt> <tt class="py-op">+</tt> <tt class="py-string">'\n\nConservation Relations\n\n'</tt> </tt>
<a name="L121"></a><tt class="py-lineno">121</tt> <tt class="py-line"> <tt class="py-name">out</tt> <tt class="py-op">=</tt> <tt class="py-name">out</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">conservation_relations</tt> <tt class="py-op">)</tt> </tt>
<a name="L122"></a><tt class="py-lineno">122</tt> <tt class="py-line"> <tt class="py-name">out</tt> <tt class="py-op">=</tt> <tt class="py-name">out</tt> <tt class="py-op">+</tt> <tt class="py-string">'\n'</tt> </tt>
<a name="L123"></a><tt class="py-lineno">123</tt> <tt class="py-line"> <tt class="py-keyword">for</tt> <tt class="py-name">line</tt> <tt class="py-keyword">in</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">sum_is_constant_lines</tt><tt class="py-op">:</tt> </tt>
<a name="L124"></a><tt class="py-lineno">124</tt> <tt class="py-line"> <tt class="py-name">out</tt> <tt class="py-op">=</tt> <tt class="py-name">out</tt> <tt class="py-op">+</tt> <tt class="py-string">'%s\n'</tt> <tt class="py-op">%</tt> <tt class="py-name">line</tt> </tt>
<a name="L125"></a><tt class="py-lineno">125</tt> <tt class="py-line"> <tt class="py-name">out</tt> <tt class="py-op">=</tt> <tt class="py-name">out</tt> <tt class="py-op">+</tt> <tt class="py-string">'\n\nElementary Modes\n\n'</tt> </tt>
<a name="L126"></a><tt class="py-lineno">126</tt> <tt class="py-line"> <tt class="py-name">out</tt> <tt class="py-op">=</tt> <tt class="py-name">out</tt> <tt class="py-op">+</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">elementary_modes</tt> <tt class="py-op">)</tt> </tt>
<a name="L127"></a><tt class="py-lineno">127</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt class="py-name">out</tt> </tt>
</div></div><a name="L128"></a><tt class="py-lineno">128</tt> <tt class="py-line"> </tt><script type="text/javascript">
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