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<a href="Bio-module.html">Package Bio</a> ::
<a href="Bio.config-module.html">Package config</a> ::
Module _stanzaformat
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<h1 class="epydoc">Source Code for <a href="Bio.config._stanzaformat-module.html">Module Bio.config._stanzaformat</a></h1>
<pre class="py-src">
<a name="L1"></a><tt class="py-lineno"> 1</tt> <tt class="py-line"><tt class="py-docstring">"""This module reads and writes (actually, write not implemented yet)</tt> </tt>
<a name="L2"></a><tt class="py-lineno"> 2</tt> <tt class="py-line"><tt class="py-docstring">files in the OBF stanza format.</tt> </tt>
<a name="L3"></a><tt class="py-lineno"> 3</tt> <tt class="py-line"><tt class="py-docstring"></tt> </tt>
<a name="L4"></a><tt class="py-lineno"> 4</tt> <tt class="py-line"><tt class="py-docstring">"""</tt> </tt>
<a name="StanzaFormat"></a><div id="StanzaFormat-def"><a name="L5"></a><tt class="py-lineno"> 5</tt> <a class="py-toggle" href="#" id="StanzaFormat-toggle" onclick="return toggle('StanzaFormat');">-</a><tt class="py-line"><tt class="py-keyword">class</tt> <a class="py-def-name" href="Bio.config._stanzaformat.StanzaFormat-class.html">StanzaFormat</a><tt class="py-op">:</tt> </tt>
</div><div id="StanzaFormat-collapsed" style="display:none;" pad="++" indent="++++"></div><div id="StanzaFormat-expanded"><a name="L6"></a><tt class="py-lineno"> 6</tt> <tt class="py-line"> <tt class="py-docstring">"""Contains information from a stanza-formatted file."""</tt> </tt>
<a name="StanzaFormat.__init__"></a><div id="StanzaFormat.__init__-def"><a name="L7"></a><tt class="py-lineno"> 7</tt> <a class="py-toggle" href="#" id="StanzaFormat.__init__-toggle" onclick="return toggle('StanzaFormat.__init__');">-</a><tt class="py-line"> <tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.config._stanzaformat.StanzaFormat-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">version</tt><tt class="py-op">,</tt> <tt class="py-param">stanzas</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="StanzaFormat.__init__-collapsed" style="display:none;" pad="++" indent="++++++++"></div><div id="StanzaFormat.__init__-expanded"><a name="L8"></a><tt class="py-lineno"> 8</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.AlignAce.Parser.AlignAceConsumer.version()=Bio.AlignAce.Parser.AlignAceConsumer-class.html#version,Method Bio.Blast.NCBIStandalone._HeaderConsumer.version()=Bio.Blast.NCBIStandalone._HeaderConsumer-class.html#version,Method Bio.GenBank._FeatureConsumer.version()=Bio.GenBank._FeatureConsumer-class.html#version,Method Bio.GenBank._RecordConsumer.version()=Bio.GenBank._RecordConsumer-class.html#version,Variable Bio.MetaTool.metatool_format.version=Bio.MetaTool.metatool_format-module.html#version,Variable Bio.expressions.genbank.version=Bio.expressions.genbank-module.html#version"><a title="Bio.AlignAce.Parser.AlignAceConsumer.version
Bio.Blast.NCBIStandalone._HeaderConsumer.version
Bio.GenBank._FeatureConsumer.version
Bio.GenBank._RecordConsumer.version
Bio.MetaTool.metatool_format.version
Bio.expressions.genbank.version" class="py-name" href="#" onclick="return doclink('link-0', 'version', 'link-0');">version</a></tt> <tt class="py-op">=</tt> <tt id="link-1" class="py-name"><a title="Bio.AlignAce.Parser.AlignAceConsumer.version
Bio.Blast.NCBIStandalone._HeaderConsumer.version
Bio.GenBank._FeatureConsumer.version
Bio.GenBank._RecordConsumer.version
Bio.MetaTool.metatool_format.version
Bio.expressions.genbank.version" class="py-name" href="#" onclick="return doclink('link-1', 'version', 'link-0');">version</a></tt> </tt>
<a name="L9"></a><tt class="py-lineno"> 9</tt> <tt class="py-line"> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">stanzas</tt> <tt class="py-op">=</tt> <tt class="py-name">stanzas</tt> </tt>
</div></div><a name="L10"></a><tt class="py-lineno">10</tt> <tt class="py-line"> </tt>
<a name="Stanza"></a><div id="Stanza-def"><a name="L11"></a><tt class="py-lineno">11</tt> <a class="py-toggle" href="#" id="Stanza-toggle" onclick="return toggle('Stanza');">-</a><tt class="py-line"><tt class="py-keyword">class</tt> <a class="py-def-name" href="Bio.config._stanzaformat.Stanza-class.html">Stanza</a><tt class="py-op">:</tt> </tt>
</div><div id="Stanza-collapsed" style="display:none;" pad="++" indent="++++"></div><div id="Stanza-expanded"><a name="L12"></a><tt class="py-lineno">12</tt> <tt class="py-line"> <tt class="py-docstring">"""Contains information about one stanza in a file."""</tt> </tt>
<a name="Stanza.__init__"></a><div id="Stanza.__init__-def"><a name="L13"></a><tt class="py-lineno">13</tt> <a class="py-toggle" href="#" id="Stanza.__init__-toggle" onclick="return toggle('Stanza.__init__');">-</a><tt class="py-line"> <tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.config._stanzaformat.Stanza-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">name</tt><tt class="py-op">,</tt> <tt class="py-param">tag_value_pairs</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="Stanza.__init__-collapsed" style="display:none;" pad="++" indent="++++++++"></div><div id="Stanza.__init__-expanded"><a name="L14"></a><tt class="py-lineno">14</tt> <tt class="py-line"> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt id="link-2" class="py-name" targets="Variable Bio.Encodings.IUPACEncoding.name=Bio.Encodings.IUPACEncoding-module.html#name"><a title="Bio.Encodings.IUPACEncoding.name" class="py-name" href="#" onclick="return doclink('link-2', 'name', 'link-2');">name</a></tt> <tt class="py-op">=</tt> <tt id="link-3" class="py-name"><a title="Bio.Encodings.IUPACEncoding.name" class="py-name" href="#" onclick="return doclink('link-3', 'name', 'link-2');">name</a></tt> </tt>
<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">tag_value_pairs</tt> <tt class="py-op">=</tt> <tt class="py-name">tag_value_pairs</tt> </tt>
<a name="L16"></a><tt class="py-lineno">16</tt> <tt class="py-line"> </tt>
<a name="L17"></a><tt class="py-lineno">17</tt> <tt class="py-line"> <tt class="py-name">dict</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt> </tt>
<a name="L18"></a><tt class="py-lineno">18</tt> <tt class="py-line"> <tt class="py-keyword">for</tt> <tt id="link-4" class="py-name" targets="Variable Martel.Time.tag=Martel.Time-module.html#tag"><a title="Martel.Time.tag" class="py-name" href="#" onclick="return doclink('link-4', 'tag', 'link-4');">tag</a></tt><tt class="py-op">,</tt> <tt id="link-5" class="py-name" targets="Variable Bio.Translate.value=Bio.Translate-module.html#value"><a title="Bio.Translate.value" class="py-name" href="#" onclick="return doclink('link-5', 'value', 'link-5');">value</a></tt> <tt class="py-keyword">in</tt> <tt class="py-name">tag_value_pairs</tt><tt class="py-op">:</tt> </tt>
<a name="L19"></a><tt class="py-lineno">19</tt> <tt class="py-line"> <tt class="py-name">dict</tt><tt class="py-op">[</tt><tt id="link-6" class="py-name"><a title="Martel.Time.tag" class="py-name" href="#" onclick="return doclink('link-6', 'tag', 'link-4');">tag</a></tt><tt class="py-op">]</tt> <tt class="py-op">=</tt> <tt id="link-7" class="py-name"><a title="Bio.Translate.value" class="py-name" href="#" onclick="return doclink('link-7', 'value', 'link-5');">value</a></tt> </tt>
<a name="L20"></a><tt class="py-lineno">20</tt> <tt class="py-line"> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">tag_value_dict</tt> <tt class="py-op">=</tt> <tt class="py-name">dict</tt> </tt>
</div></div><a name="L21"></a><tt class="py-lineno">21</tt> <tt class="py-line"> </tt>
<a name="load"></a><div id="load-def"><a name="L22"></a><tt class="py-lineno">22</tt> <a class="py-toggle" href="#" id="load-toggle" onclick="return toggle('load');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.config._stanzaformat-module.html#load">load</a><tt class="py-op">(</tt><tt class="py-param">handle</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="load-collapsed" style="display:none;" pad="++" indent="++++"></div><div id="load-expanded"><a name="L23"></a><tt class="py-lineno">23</tt> <tt class="py-line"> <tt class="py-docstring">"""load(handle) -> StanzaFormat object"""</tt> </tt>
<a name="L24"></a><tt class="py-lineno">24</tt> <tt class="py-line"> <tt class="py-keyword">import</tt> <tt class="py-name">ConfigParser</tt> </tt>
<a name="L25"></a><tt class="py-lineno">25</tt> <tt class="py-line"> <tt class="py-name">parser</tt> <tt class="py-op">=</tt> <tt class="py-name">ConfigParser</tt><tt class="py-op">.</tt><tt class="py-name">ConfigParser</tt><tt class="py-op">(</tt><tt class="py-op">)</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 class="py-comment"># Read the VERSION string.</tt> </tt>
<a name="L28"></a><tt class="py-lineno">28</tt> <tt class="py-line"><tt class="py-comment"></tt> <tt class="py-name">line</tt> <tt class="py-op">=</tt> <tt id="link-8" class="py-name" targets="Variable Bio.LocusLink.web_parse.handle=Bio.LocusLink.web_parse-module.html#handle,Variable Bio.Ndb.handle=Bio.Ndb-module.html#handle"><a title="Bio.LocusLink.web_parse.handle
Bio.Ndb.handle" class="py-name" href="#" onclick="return doclink('link-8', 'handle', 'link-8');">handle</a></tt><tt class="py-op">.</tt><tt id="link-9" class="py-name" targets="Method Bio.EUtils.ReseekFile.ReseekFile.readline()=Bio.EUtils.ReseekFile.ReseekFile-class.html#readline,Method Bio.File.SGMLHandle.readline()=Bio.File.SGMLHandle-class.html#readline,Method Bio.File.UndoHandle.readline()=Bio.File.UndoHandle-class.html#readline,Method Bio.SGMLExtractor.SGMLExtractorHandle.readline()=Bio.SGMLExtractor.SGMLExtractorHandle-class.html#readline"><a title="Bio.EUtils.ReseekFile.ReseekFile.readline
Bio.File.SGMLHandle.readline
Bio.File.UndoHandle.readline
Bio.SGMLExtractor.SGMLExtractorHandle.readline" class="py-name" href="#" onclick="return doclink('link-9', 'readline', 'link-9');">readline</a></tt><tt class="py-op">(</tt><tt class="py-op">)</tt> </tt>
<a name="L29"></a><tt class="py-lineno">29</tt> <tt class="py-line"> <tt class="py-keyword">while</tt> <tt class="py-name">line</tt> <tt class="py-keyword">and</tt> <tt class="py-keyword">not</tt> <tt class="py-name">line</tt><tt class="py-op">.</tt><tt class="py-name">startswith</tt><tt class="py-op">(</tt><tt class="py-string">"VERSION"</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
<a name="L30"></a><tt class="py-lineno">30</tt> <tt class="py-line"> <tt class="py-name">line</tt> <tt class="py-op">=</tt> <tt id="link-10" class="py-name"><a title="Bio.LocusLink.web_parse.handle
Bio.Ndb.handle" class="py-name" href="#" onclick="return doclink('link-10', 'handle', 'link-8');">handle</a></tt><tt class="py-op">.</tt><tt id="link-11" class="py-name"><a title="Bio.EUtils.ReseekFile.ReseekFile.readline
Bio.File.SGMLHandle.readline
Bio.File.UndoHandle.readline
Bio.SGMLExtractor.SGMLExtractorHandle.readline" class="py-name" href="#" onclick="return doclink('link-11', 'readline', 'link-9');">readline</a></tt><tt class="py-op">(</tt><tt class="py-op">)</tt> </tt>
<a name="L31"></a><tt class="py-lineno">31</tt> <tt class="py-line"> <tt class="py-keyword">assert</tt> <tt class="py-name">line</tt><tt class="py-op">,</tt> <tt class="py-string">"I could not find the VERSION line"</tt> </tt>
<a name="L32"></a><tt class="py-lineno">32</tt> <tt class="py-line"> <tt id="link-12" class="py-name" targets="Variable Bio.MarkovModel.x=Bio.MarkovModel-module.html#x,Variable Bio.Statistics.lowess.x=Bio.Statistics.lowess-module.html#x"><a title="Bio.MarkovModel.x
Bio.Statistics.lowess.x" class="py-name" href="#" onclick="return doclink('link-12', 'x', 'link-12');">x</a></tt><tt class="py-op">,</tt> <tt id="link-13" class="py-name"><a title="Bio.AlignAce.Parser.AlignAceConsumer.version
Bio.Blast.NCBIStandalone._HeaderConsumer.version
Bio.GenBank._FeatureConsumer.version
Bio.GenBank._RecordConsumer.version
Bio.MetaTool.metatool_format.version
Bio.expressions.genbank.version" class="py-name" href="#" onclick="return doclink('link-13', 'version', 'link-0');">version</a></tt> <tt class="py-op">=</tt> <tt class="py-name">line</tt><tt class="py-op">.</tt><tt id="link-14" class="py-name" targets="Method Bio.Nexus.Trees.Tree.split()=Bio.Nexus.Trees.Tree-class.html#split,Method Bio.Restriction.Restriction.RestrictionBatch.split()=Bio.Restriction.Restriction.RestrictionBatch-class.html#split"><a title="Bio.Nexus.Trees.Tree.split
Bio.Restriction.Restriction.RestrictionBatch.split" class="py-name" href="#" onclick="return doclink('link-14', 'split', 'link-14');">split</a></tt><tt class="py-op">(</tt><tt class="py-string">"="</tt><tt class="py-op">)</tt> </tt>
<a name="L33"></a><tt class="py-lineno">33</tt> <tt class="py-line"> <tt id="link-15" class="py-name"><a title="Bio.AlignAce.Parser.AlignAceConsumer.version
Bio.Blast.NCBIStandalone._HeaderConsumer.version
Bio.GenBank._FeatureConsumer.version
Bio.GenBank._RecordConsumer.version
Bio.MetaTool.metatool_format.version
Bio.expressions.genbank.version" class="py-name" href="#" onclick="return doclink('link-15', 'version', 'link-0');">version</a></tt> <tt class="py-op">=</tt> <tt id="link-16" class="py-name"><a title="Bio.AlignAce.Parser.AlignAceConsumer.version
Bio.Blast.NCBIStandalone._HeaderConsumer.version
Bio.GenBank._FeatureConsumer.version
Bio.GenBank._RecordConsumer.version
Bio.MetaTool.metatool_format.version
Bio.expressions.genbank.version" class="py-name" href="#" onclick="return doclink('link-16', 'version', 'link-0');">version</a></tt><tt class="py-op">.</tt><tt id="link-17" class="py-name" targets="Class Bio.EUtils.DTDs.LinkOut.strip=Bio.EUtils.DTDs.LinkOut.strip-class.html,Method Bio.File.SGMLStripper.strip()=Bio.File.SGMLStripper-class.html#strip,Method Bio.SGMLExtractor.SGMLExtractor.strip()=Bio.SGMLExtractor.SGMLExtractor-class.html#strip"><a title="Bio.EUtils.DTDs.LinkOut.strip
Bio.File.SGMLStripper.strip
Bio.SGMLExtractor.SGMLExtractor.strip" class="py-name" href="#" onclick="return doclink('link-17', 'strip', 'link-17');">strip</a></tt><tt class="py-op">(</tt><tt class="py-op">)</tt> </tt>
<a name="L34"></a><tt class="py-lineno">34</tt> <tt class="py-line"> </tt>
<a name="L35"></a><tt class="py-lineno">35</tt> <tt class="py-line"> <tt class="py-keyword">try</tt><tt class="py-op">:</tt> </tt>
<a name="L36"></a><tt class="py-lineno">36</tt> <tt class="py-line"> <tt class="py-name">parser</tt><tt class="py-op">.</tt><tt class="py-name">readfp</tt><tt class="py-op">(</tt><tt id="link-18" class="py-name"><a title="Bio.LocusLink.web_parse.handle
Bio.Ndb.handle" class="py-name" href="#" onclick="return doclink('link-18', 'handle', 'link-8');">handle</a></tt><tt class="py-op">)</tt> </tt>
<a name="L37"></a><tt class="py-lineno">37</tt> <tt class="py-line"> <tt class="py-keyword">except</tt> <tt class="py-name">ConfigParser</tt><tt class="py-op">.</tt><tt id="link-19" class="py-name" targets="Class Bio.Crystal.Error=Bio.Crystal.Error-class.html,Class Bio.ECell.Error=Bio.ECell.Error-class.html"><a title="Bio.Crystal.Error
Bio.ECell.Error" class="py-name" href="#" onclick="return doclink('link-19', 'Error', 'link-19');">Error</a></tt><tt class="py-op">,</tt> <tt id="link-20" class="py-name"><a title="Bio.MarkovModel.x
Bio.Statistics.lowess.x" class="py-name" href="#" onclick="return doclink('link-20', 'x', 'link-12');">x</a></tt><tt class="py-op">:</tt> </tt>
<a name="L38"></a><tt class="py-lineno">38</tt> <tt class="py-line"> <tt class="py-keyword">raise</tt> <tt class="py-name">ValueError</tt><tt class="py-op">,</tt> <tt id="link-21" class="py-name"><a title="Bio.MarkovModel.x
Bio.Statistics.lowess.x" class="py-name" href="#" onclick="return doclink('link-21', 'x', 'link-12');">x</a></tt> </tt>
<a name="L39"></a><tt class="py-lineno">39</tt> <tt class="py-line"> <tt class="py-name">stanzas</tt> <tt class="py-op">=</tt> <tt class="py-op">[</tt><tt class="py-op">]</tt> </tt>
<a name="L40"></a><tt class="py-lineno">40</tt> <tt class="py-line"> <tt class="py-keyword">for</tt> <tt class="py-name">section</tt> <tt class="py-keyword">in</tt> <tt class="py-name">parser</tt><tt class="py-op">.</tt><tt class="py-name">sections</tt><tt class="py-op">(</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
<a name="L41"></a><tt class="py-lineno">41</tt> <tt class="py-line"> <tt class="py-name">pairs</tt> <tt class="py-op">=</tt> <tt class="py-op">[</tt><tt class="py-op">]</tt> </tt>
<a name="L42"></a><tt class="py-lineno">42</tt> <tt class="py-line"> <tt class="py-keyword">for</tt> <tt id="link-22" class="py-name"><a title="Martel.Time.tag" class="py-name" href="#" onclick="return doclink('link-22', 'tag', 'link-4');">tag</a></tt> <tt class="py-keyword">in</tt> <tt class="py-name">parser</tt><tt class="py-op">.</tt><tt class="py-name">options</tt><tt class="py-op">(</tt><tt class="py-name">section</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
<a name="L43"></a><tt class="py-lineno">43</tt> <tt class="py-line"> <tt id="link-23" class="py-name"><a title="Bio.Translate.value" class="py-name" href="#" onclick="return doclink('link-23', 'value', 'link-5');">value</a></tt> <tt class="py-op">=</tt> <tt class="py-name">parser</tt><tt class="py-op">.</tt><tt id="link-24" class="py-name" targets="Method Bio.Crystal.Crystal.get()=Bio.Crystal.Crystal-class.html#get,Method Bio.Data.CodonTable.AmbiguousForwardTable.get()=Bio.Data.CodonTable.AmbiguousForwardTable-class.html#get,Method Bio.EUtils.MultiDict._BaseMultiDict.get()=Bio.EUtils.MultiDict._BaseMultiDict-class.html#get,Method Bio.EUtils.POM.ElementNode.get()=Bio.EUtils.POM.ElementNode-class.html#get,Method Bio.GenBank.NCBIDictionary.get()=Bio.GenBank.NCBIDictionary-class.html#get,Method Bio.Mindy.BaseDB.DictLookup.get()=Bio.Mindy.BaseDB.DictLookup-class.html#get,Method Bio.Prosite.ExPASyDictionary.get()=Bio.Prosite.ExPASyDictionary-class.html#get,Method Bio.Prosite.Prodoc.ExPASyDictionary.get()=Bio.Prosite.Prodoc.ExPASyDictionary-class.html#get,Method Bio.PubMed.Dictionary.get()=Bio.PubMed.Dictionary-class.html#get,Method Bio.Restriction.Restriction.RestrictionBatch.get()=Bio.Restriction.Restriction.RestrictionBatch-class.html#get,Method Bio.Restriction._Update.RestrictionCompiler.DictionaryBuilder.get()=Bio.Restriction._Update.RestrictionCompiler.DictionaryBuilder-class.html#get,Method Bio.SeqUtils.MissingTable.get()=Bio.SeqUtils.MissingTable-class.html#get,Method Bio.SwissProt.SProt.ExPASyDictionary.get()=Bio.SwissProt.SProt.ExPASyDictionary-class.html#get,Method Bio.config.DBRegistry.DBGroup.get()=Bio.config.DBRegistry.DBGroup-class.html#get,Method Bio.config.DBRegistry.DBObject.get()=Bio.config.DBRegistry.DBObject-class.html#get,Method Bio.config.Registry.Registry.get()=Bio.config.Registry.Registry-class.html#get,Method Martel.Parser.MartelAttributeList.get()=Martel.Parser.MartelAttributeList-class.html#get,Method Martel.msre_parse.Tokenizer.get()=Martel.msre_parse.Tokenizer-class.html#get"><a title="Bio.Crystal.Crystal.get
Bio.Data.CodonTable.AmbiguousForwardTable.get
Bio.EUtils.MultiDict._BaseMultiDict.get
Bio.EUtils.POM.ElementNode.get
Bio.GenBank.NCBIDictionary.get
Bio.Mindy.BaseDB.DictLookup.get
Bio.Prosite.ExPASyDictionary.get
Bio.Prosite.Prodoc.ExPASyDictionary.get
Bio.PubMed.Dictionary.get
Bio.Restriction.Restriction.RestrictionBatch.get
Bio.Restriction._Update.RestrictionCompiler.DictionaryBuilder.get
Bio.SeqUtils.MissingTable.get
Bio.SwissProt.SProt.ExPASyDictionary.get
Bio.config.DBRegistry.DBGroup.get
Bio.config.DBRegistry.DBObject.get
Bio.config.Registry.Registry.get
Martel.Parser.MartelAttributeList.get
Martel.msre_parse.Tokenizer.get" class="py-name" href="#" onclick="return doclink('link-24', 'get', 'link-24');">get</a></tt><tt class="py-op">(</tt><tt class="py-name">section</tt><tt class="py-op">,</tt> <tt id="link-25" class="py-name"><a title="Martel.Time.tag" class="py-name" href="#" onclick="return doclink('link-25', 'tag', 'link-4');">tag</a></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">pairs</tt><tt class="py-op">.</tt><tt id="link-26" 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-26', 'append', 'link-26');">append</a></tt><tt class="py-op">(</tt><tt class="py-op">(</tt><tt id="link-27" class="py-name"><a title="Martel.Time.tag" class="py-name" href="#" onclick="return doclink('link-27', 'tag', 'link-4');">tag</a></tt><tt class="py-op">,</tt> <tt id="link-28" class="py-name"><a title="Bio.Translate.value" class="py-name" href="#" onclick="return doclink('link-28', 'value', 'link-5');">value</a></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">stanzas</tt><tt class="py-op">.</tt><tt id="link-29" class="py-name"><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-29', 'append', 'link-26');">append</a></tt><tt class="py-op">(</tt><tt id="link-30" class="py-name" targets="Class Bio.config._stanzaformat.Stanza=Bio.config._stanzaformat.Stanza-class.html"><a title="Bio.config._stanzaformat.Stanza" class="py-name" href="#" onclick="return doclink('link-30', 'Stanza', 'link-30');">Stanza</a></tt><tt class="py-op">(</tt><tt class="py-name">section</tt><tt class="py-op">,</tt> <tt class="py-name">pairs</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-keyword">return</tt> <tt id="link-31" class="py-name" targets="Class Bio.config._stanzaformat.StanzaFormat=Bio.config._stanzaformat.StanzaFormat-class.html"><a title="Bio.config._stanzaformat.StanzaFormat" class="py-name" href="#" onclick="return doclink('link-31', 'StanzaFormat', 'link-31');">StanzaFormat</a></tt><tt class="py-op">(</tt><tt id="link-32" class="py-name"><a title="Bio.AlignAce.Parser.AlignAceConsumer.version
Bio.Blast.NCBIStandalone._HeaderConsumer.version
Bio.GenBank._FeatureConsumer.version
Bio.GenBank._RecordConsumer.version
Bio.MetaTool.metatool_format.version
Bio.expressions.genbank.version" class="py-name" href="#" onclick="return doclink('link-32', 'version', 'link-0');">version</a></tt><tt class="py-op">,</tt> <tt class="py-name">stanzas</tt><tt class="py-op">)</tt> </tt>
</div><a name="L47"></a><tt class="py-lineno">47</tt> <tt class="py-line"> </tt><script type="text/javascript">
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