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<a href="Bio-module.html">Package Bio</a> ::
Module Std
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<h1 class="epydoc">Source Code for <a href="Bio.Std-module.html">Module Bio.Std</a></h1>
<pre class="py-src">
<a name="L1"></a><tt class="py-lineno"> 1</tt> <tt class="py-line"><tt class="py-comment"># Standard Bioformats definitions</tt> </tt>
<a name="L2"></a><tt class="py-lineno"> 2</tt> <tt class="py-line"><tt class="py-comment"></tt> </tt>
<a name="L3"></a><tt class="py-lineno"> 3</tt> <tt class="py-line"><tt class="py-keyword">import</tt> <tt id="link-0" class="py-name" targets="Package Martel=Martel-module.html"><a title="Martel" class="py-name" href="#" onclick="return doclink('link-0', 'Martel', 'link-0');">Martel</a></tt> </tt>
<a name="L4"></a><tt class="py-lineno"> 4</tt> <tt class="py-line"><tt id="link-1" class="py-name" targets="Class Martel.Expression.Group=Martel.Expression.Group-class.html,Function Martel.Group()=Martel-module.html#Group"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-1', 'Group', 'link-1');">Group</a></tt> <tt class="py-op">=</tt> <tt id="link-2" class="py-name"><a title="Martel" class="py-name" href="#" onclick="return doclink('link-2', 'Martel', 'link-0');">Martel</a></tt><tt class="py-op">.</tt><tt id="link-3" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-3', 'Group', 'link-1');">Group</a></tt> </tt>
<a name="L5"></a><tt class="py-lineno"> 5</tt> <tt class="py-line"> </tt>
<a name="L6"></a><tt class="py-lineno"> 6</tt> <tt class="py-line"><tt id="link-4" class="py-name" targets="Variable Bio.Std.namespace=Bio.Std-module.html#namespace,Variable Bio.biblio.namespace=Bio.biblio-module.html#namespace"><a title="Bio.Std.namespace
Bio.biblio.namespace" class="py-name" href="#" onclick="return doclink('link-4', 'namespace', 'link-4');">namespace</a></tt> <tt class="py-op">=</tt> <tt class="py-string">"bioformat"</tt> </tt>
<a name="L7"></a><tt class="py-lineno"> 7</tt> <tt class="py-line"><tt id="link-5" class="py-name" targets="Variable Bio.Std.NS=Bio.Std-module.html#NS"><a title="Bio.Std.NS" class="py-name" href="#" onclick="return doclink('link-5', 'NS', 'link-5');">NS</a></tt> <tt class="py-op">=</tt> <tt id="link-6" class="py-name"><a title="Bio.Std.namespace
Bio.biblio.namespace" class="py-name" href="#" onclick="return doclink('link-6', 'namespace', 'link-4');">namespace</a></tt> <tt class="py-op">+</tt> <tt class="py-string">":"</tt> </tt>
<a name="L8"></a><tt class="py-lineno"> 8</tt> <tt class="py-line"><tt id="link-7" class="py-name" targets="Variable Bio.Std.XMLNS=Bio.Std-module.html#XMLNS"><a title="Bio.Std.XMLNS" class="py-name" href="#" onclick="return doclink('link-7', 'XMLNS', 'link-7');">XMLNS</a></tt> <tt class="py-op">=</tt> <tt class="py-string">"http://biopython.org/bioformat"</tt> </tt>
<a name="L9"></a><tt class="py-lineno"> 9</tt> <tt class="py-line"> </tt>
<a name="_set_if_given"></a><div id="_set_if_given-def"><a name="L10"></a><tt class="py-lineno"> 10</tt> <a class="py-toggle" href="#" id="_set_if_given-toggle" onclick="return toggle('_set_if_given');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#_set_if_given">_set_if_given</a><tt class="py-op">(</tt><tt class="py-param">attrs</tt><tt class="py-op">,</tt> <tt class="py-param">field</tt><tt class="py-op">,</tt> <tt class="py-param">d</tt><tt class="py-op">,</tt> <tt class="py-param">valid</tt> <tt class="py-op">=</tt> <tt class="py-name">None</tt><tt class="py-op">,</tt> <tt class="py-param">convert</tt> <tt class="py-op">=</tt> <tt class="py-name">None</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="_set_if_given-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="_set_if_given-expanded"><a name="L11"></a><tt class="py-lineno"> 11</tt> <tt class="py-line"> <tt id="link-8" 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-8', 'value', 'link-8');">value</a></tt> <tt class="py-op">=</tt> <tt id="link-9" class="py-name" targets="Variable Martel.Time.attrs=Martel.Time-module.html#attrs"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-9', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">.</tt><tt id="link-10" 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-10', 'get', 'link-10');">get</a></tt><tt class="py-op">(</tt><tt class="py-name">field</tt><tt class="py-op">)</tt> </tt>
<a name="L12"></a><tt class="py-lineno"> 12</tt> <tt class="py-line"> <tt class="py-keyword">if</tt> <tt id="link-11" class="py-name"><a title="Bio.Translate.value" class="py-name" href="#" onclick="return doclink('link-11', 'value', 'link-8');">value</a></tt> <tt class="py-keyword">is</tt> <tt class="py-keyword">not</tt> <tt class="py-name">None</tt><tt class="py-op">:</tt> </tt>
<a name="L13"></a><tt class="py-lineno"> 13</tt> <tt class="py-line"> <tt class="py-keyword">if</tt> <tt class="py-name">valid</tt> <tt class="py-keyword">is</tt> <tt class="py-keyword">not</tt> <tt class="py-name">None</tt><tt class="py-op">:</tt> </tt>
<a name="L14"></a><tt class="py-lineno"> 14</tt> <tt class="py-line"> <tt class="py-keyword">if</tt> <tt id="link-12" class="py-name"><a title="Bio.Translate.value" class="py-name" href="#" onclick="return doclink('link-12', 'value', 'link-8');">value</a></tt> <tt class="py-keyword">not</tt> <tt class="py-keyword">in</tt> <tt class="py-name">valid</tt><tt class="py-op">:</tt> </tt>
<a name="L15"></a><tt class="py-lineno"> 15</tt> <tt class="py-line"> <tt class="py-keyword">raise</tt> <tt class="py-name">TypeError</tt><tt class="py-op">(</tt><tt class="py-string">"%s (%r) must be one of %s"</tt> <tt class="py-op">%</tt> \ </tt>
<a name="L16"></a><tt class="py-lineno"> 16</tt> <tt class="py-line"> <tt class="py-op">(</tt><tt class="py-name">field</tt><tt class="py-op">,</tt> <tt id="link-13" class="py-name"><a title="Bio.Translate.value" class="py-name" href="#" onclick="return doclink('link-13', 'value', 'link-8');">value</a></tt><tt class="py-op">,</tt> <tt class="py-name">valid</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L17"></a><tt class="py-lineno"> 17</tt> <tt class="py-line"> <tt class="py-keyword">if</tt> <tt class="py-name">convert</tt> <tt class="py-keyword">is</tt> <tt class="py-name">None</tt><tt class="py-op">:</tt> </tt>
<a name="L18"></a><tt class="py-lineno"> 18</tt> <tt class="py-line"> <tt id="link-14" class="py-name" targets="Variable Bio.EUtils.setup.d=Bio.EUtils.setup-module.html#d"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-14', 'd', 'link-14');">d</a></tt><tt class="py-op">[</tt><tt class="py-name">field</tt><tt class="py-op">]</tt> <tt class="py-op">=</tt> <tt id="link-15" class="py-name"><a title="Bio.Translate.value" class="py-name" href="#" onclick="return doclink('link-15', 'value', 'link-8');">value</a></tt> </tt>
<a name="L19"></a><tt class="py-lineno"> 19</tt> <tt class="py-line"> <tt class="py-keyword">else</tt><tt class="py-op">:</tt> </tt>
<a name="L20"></a><tt class="py-lineno"> 20</tt> <tt class="py-line"> <tt id="link-16" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-16', 'd', 'link-14');">d</a></tt><tt class="py-op">[</tt><tt class="py-name">field</tt><tt class="py-op">]</tt> <tt class="py-op">=</tt> <tt class="py-name">convert</tt><tt class="py-op">(</tt><tt id="link-17" class="py-name"><a title="Bio.Translate.value" class="py-name" href="#" onclick="return doclink('link-17', 'value', 'link-8');">value</a></tt><tt class="py-op">)</tt> </tt>
</div><a name="L21"></a><tt class="py-lineno"> 21</tt> <tt class="py-line"> </tt>
<a name="_complain_if_given"></a><div id="_complain_if_given-def"><a name="L22"></a><tt class="py-lineno"> 22</tt> <a class="py-toggle" href="#" id="_complain_if_given-toggle" onclick="return toggle('_complain_if_given');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#_complain_if_given">_complain_if_given</a><tt class="py-op">(</tt><tt class="py-param">attrs</tt><tt class="py-op">,</tt> <tt class="py-param">name</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="_complain_if_given-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="_complain_if_given-expanded"><a name="L23"></a><tt class="py-lineno"> 23</tt> <tt class="py-line"> <tt class="py-keyword">if</tt> <tt id="link-18" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-18', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">.</tt><tt id="link-19" 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-19', 'has_key', 'link-19');">has_key</a></tt><tt class="py-op">(</tt><tt id="link-20" 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-20', 'name', 'link-20');">name</a></tt><tt class="py-op">)</tt> <tt class="py-keyword">and</tt> <tt id="link-21" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-21', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">[</tt><tt id="link-22" class="py-name"><a title="Bio.Encodings.IUPACEncoding.name" class="py-name" href="#" onclick="return doclink('link-22', 'name', 'link-20');">name</a></tt><tt class="py-op">]</tt> <tt class="py-keyword">is</tt> <tt class="py-keyword">not</tt> <tt class="py-name">None</tt><tt class="py-op">:</tt> </tt>
<a name="L24"></a><tt class="py-lineno"> 24</tt> <tt class="py-line"> <tt class="py-keyword">raise</tt> <tt class="py-name">NotImplementedError</tt><tt class="py-op">(</tt><tt class="py-string">"Don't yet handle %r"</tt> <tt class="py-op">%</tt> <tt class="py-op">(</tt><tt id="link-23" class="py-name"><a title="Bio.Encodings.IUPACEncoding.name" class="py-name" href="#" onclick="return doclink('link-23', 'name', 'link-20');">name</a></tt><tt class="py-op">,</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
</div><a name="L25"></a><tt class="py-lineno"> 25</tt> <tt class="py-line"> </tt>
<a name="_must_have"></a><div id="_must_have-def"><a name="L26"></a><tt class="py-lineno"> 26</tt> <a class="py-toggle" href="#" id="_must_have-toggle" onclick="return toggle('_must_have');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#_must_have">_must_have</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">f</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="_must_have-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="_must_have-expanded"><a name="L27"></a><tt class="py-lineno"> 27</tt> <tt class="py-line"> <tt id="link-24" 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-24', 'tag', 'link-24');">tag</a></tt> <tt class="py-op">=</tt> <tt class="py-name">f</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-24');">tag</a></tt> </tt>
<a name="L28"></a><tt class="py-lineno"> 28</tt> <tt class="py-line"> <tt class="py-keyword">if</tt> <tt id="link-26" class="py-name"><a title="Martel.Time.tag" class="py-name" href="#" onclick="return doclink('link-26', 'tag', 'link-24');">tag</a></tt> <tt class="py-keyword">not</tt> <tt class="py-keyword">in</tt> <tt class="py-name">expr</tt><tt class="py-op">.</tt><tt id="link-27" class="py-name" targets="Method Martel.Expression.Expression.group_names()=Martel.Expression.Expression-class.html#group_names,Method Martel.Expression.ExpressionList.group_names()=Martel.Expression.ExpressionList-class.html#group_names,Method Martel.Expression.Group.group_names()=Martel.Expression.Group-class.html#group_names,Method Martel.Expression.HeaderFooter.group_names()=Martel.Expression.HeaderFooter-class.html#group_names,Method Martel.Expression.MaxRepeat.group_names()=Martel.Expression.MaxRepeat-class.html#group_names,Method Martel.Expression.ParseRecords.group_names()=Martel.Expression.ParseRecords-class.html#group_names,Method Martel.Expression.PassThrough.group_names()=Martel.Expression.PassThrough-class.html#group_names"><a title="Martel.Expression.Expression.group_names
Martel.Expression.ExpressionList.group_names
Martel.Expression.Group.group_names
Martel.Expression.HeaderFooter.group_names
Martel.Expression.MaxRepeat.group_names
Martel.Expression.ParseRecords.group_names
Martel.Expression.PassThrough.group_names" class="py-name" href="#" onclick="return doclink('link-27', 'group_names', 'link-27');">group_names</a></tt><tt class="py-op">(</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">raise</tt> <tt class="py-name">TypeError</tt><tt class="py-op">(</tt> </tt>
<a name="L30"></a><tt class="py-lineno"> 30</tt> <tt class="py-line"> <tt class="py-string">"group %r not present in the expression but is required"</tt> <tt class="py-op">%</tt> \ </tt>
<a name="L31"></a><tt class="py-lineno"> 31</tt> <tt class="py-line"> <tt class="py-op">(</tt><tt id="link-28" class="py-name"><a title="Martel.Time.tag" class="py-name" href="#" onclick="return doclink('link-28', 'tag', 'link-24');">tag</a></tt><tt class="py-op">,</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
</div><a name="L32"></a><tt class="py-lineno"> 32</tt> <tt class="py-line"> </tt>
<a name="_must_have_set"></a><div id="_must_have_set-def"><a name="L33"></a><tt class="py-lineno"> 33</tt> <a class="py-toggle" href="#" id="_must_have_set-toggle" onclick="return toggle('_must_have_set');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#_must_have_set">_must_have_set</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">sets</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="_must_have_set-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="_must_have_set-expanded"><a name="L34"></a><tt class="py-lineno"> 34</tt> <tt class="py-line"> <tt id="link-29" class="py-name" targets="Method Bio.Compass._Consumer.names()=Bio.Compass._Consumer-class.html#names"><a title="Bio.Compass._Consumer.names" class="py-name" href="#" onclick="return doclink('link-29', 'names', 'link-29');">names</a></tt> <tt class="py-op">=</tt> <tt class="py-name">expr</tt><tt class="py-op">.</tt><tt id="link-30" class="py-name"><a title="Martel.Expression.Expression.group_names
Martel.Expression.ExpressionList.group_names
Martel.Expression.Group.group_names
Martel.Expression.HeaderFooter.group_names
Martel.Expression.MaxRepeat.group_names
Martel.Expression.ParseRecords.group_names
Martel.Expression.PassThrough.group_names" class="py-name" href="#" onclick="return doclink('link-30', 'group_names', 'link-27');">group_names</a></tt><tt class="py-op">(</tt><tt class="py-op">)</tt> </tt>
<a name="L35"></a><tt class="py-lineno"> 35</tt> <tt class="py-line"> <tt class="py-keyword">for</tt> <tt id="link-31" class="py-name" targets="Method Bio.Nexus.Nexus.StepMatrix.set()=Bio.Nexus.Nexus.StepMatrix-class.html#set,Method Bio.SVDSuperimposer.SVDSuperimposer'.SVDSuperimposer.set()=Bio.SVDSuperimposer.SVDSuperimposer%27.SVDSuperimposer-class.html#set,Method Bio.config.DBRegistry.DBObject.set()=Bio.config.DBRegistry.DBObject-class.html#set"><a title="Bio.Nexus.Nexus.StepMatrix.set
Bio.SVDSuperimposer.SVDSuperimposer'.SVDSuperimposer.set
Bio.config.DBRegistry.DBObject.set" class="py-name" href="#" onclick="return doclink('link-31', 'set', 'link-31');">set</a></tt> <tt class="py-keyword">in</tt> <tt class="py-name">sets</tt><tt class="py-op">:</tt> </tt>
<a name="L36"></a><tt class="py-lineno"> 36</tt> <tt class="py-line"> <tt class="py-keyword">for</tt> <tt class="py-name">f</tt> <tt class="py-keyword">in</tt> <tt id="link-32" class="py-name"><a title="Bio.Nexus.Nexus.StepMatrix.set
Bio.SVDSuperimposer.SVDSuperimposer'.SVDSuperimposer.set
Bio.config.DBRegistry.DBObject.set" class="py-name" href="#" onclick="return doclink('link-32', 'set', 'link-31');">set</a></tt><tt class="py-op">:</tt> </tt>
<a name="L37"></a><tt class="py-lineno"> 37</tt> <tt class="py-line"> <tt id="link-33" class="py-name"><a title="Martel.Time.tag" class="py-name" href="#" onclick="return doclink('link-33', 'tag', 'link-24');">tag</a></tt> <tt class="py-op">=</tt> <tt class="py-name">f</tt><tt class="py-op">.</tt><tt id="link-34" class="py-name"><a title="Martel.Time.tag" class="py-name" href="#" onclick="return doclink('link-34', 'tag', 'link-24');">tag</a></tt> </tt>
<a name="L38"></a><tt class="py-lineno"> 38</tt> <tt class="py-line"> <tt class="py-keyword">if</tt> <tt id="link-35" class="py-name"><a title="Martel.Time.tag" class="py-name" href="#" onclick="return doclink('link-35', 'tag', 'link-24');">tag</a></tt> <tt class="py-keyword">not</tt> <tt class="py-keyword">in</tt> <tt id="link-36" class="py-name"><a title="Bio.Compass._Consumer.names" class="py-name" href="#" onclick="return doclink('link-36', 'names', 'link-29');">names</a></tt><tt class="py-op">:</tt> </tt>
<a name="L39"></a><tt class="py-lineno"> 39</tt> <tt class="py-line"> <tt class="py-keyword">break</tt> </tt>
<a name="L40"></a><tt class="py-lineno"> 40</tt> <tt class="py-line"> <tt class="py-keyword">else</tt><tt class="py-op">:</tt> </tt>
<a name="L41"></a><tt class="py-lineno"> 41</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> </tt>
<a name="L42"></a><tt class="py-lineno"> 42</tt> <tt class="py-line"> <tt class="py-keyword">if</tt> <tt class="py-name">len</tt><tt class="py-op">(</tt><tt class="py-name">sets</tt><tt class="py-op">)</tt> <tt class="py-op">==</tt> <tt class="py-number">1</tt><tt class="py-op">:</tt> </tt>
<a name="L43"></a><tt class="py-lineno"> 43</tt> <tt class="py-line"> <tt class="py-keyword">raise</tt> <tt class="py-name">TypeError</tt><tt class="py-op">(</tt><tt class="py-string">"missing required tags (need %s) in expression"</tt> <tt class="py-op">%</tt> </tt>
<a name="L44"></a><tt class="py-lineno"> 44</tt> <tt class="py-line"> <tt class="py-op">[</tt><tt class="py-name">f</tt><tt class="py-op">.</tt><tt id="link-37" class="py-name"><a title="Martel.Time.tag" class="py-name" href="#" onclick="return doclink('link-37', 'tag', 'link-24');">tag</a></tt> <tt class="py-keyword">for</tt> <tt class="py-name">f</tt> <tt class="py-keyword">in</tt> <tt class="py-name">sets</tt><tt class="py-op">[</tt><tt class="py-number">0</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">lines</tt> <tt class="py-op">=</tt> <tt class="py-op">[</tt><tt class="py-string">"missing required tags in expression; must have one set from:"</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">for</tt> <tt id="link-38" class="py-name"><a title="Bio.Nexus.Nexus.StepMatrix.set
Bio.SVDSuperimposer.SVDSuperimposer'.SVDSuperimposer.set
Bio.config.DBRegistry.DBObject.set" class="py-name" href="#" onclick="return doclink('link-38', 'set', 'link-31');">set</a></tt> <tt class="py-keyword">in</tt> <tt class="py-name">sets</tt><tt class="py-op">:</tt> </tt>
<a name="L47"></a><tt class="py-lineno"> 47</tt> <tt class="py-line"> <tt class="py-name">lines</tt><tt class="py-op">.</tt><tt id="link-39" 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-39', 'append', 'link-39');">append</a></tt><tt class="py-op">(</tt> <tt class="py-name">str</tt><tt class="py-op">(</tt> <tt class="py-op">[</tt><tt class="py-name">t</tt><tt class="py-op">.</tt><tt id="link-40" class="py-name"><a title="Martel.Time.tag" class="py-name" href="#" onclick="return doclink('link-40', 'tag', 'link-24');">tag</a></tt> <tt class="py-keyword">for</tt> <tt class="py-name">f</tt> <tt class="py-keyword">in</tt> <tt id="link-41" class="py-name"><a title="Bio.Nexus.Nexus.StepMatrix.set
Bio.SVDSuperimposer.SVDSuperimposer'.SVDSuperimposer.set
Bio.config.DBRegistry.DBObject.set" class="py-name" href="#" onclick="return doclink('link-41', 'set', 'link-31');">set</a></tt><tt class="py-op">]</tt> <tt class="py-op">)</tt> <tt class="py-op">)</tt> </tt>
<a name="L48"></a><tt class="py-lineno"> 48</tt> <tt class="py-line"> <tt id="link-42" class="py-name" targets="Variable Martel.test.test_swissprot38.s=Martel.test.test_swissprot38-module.html#s"><a title="Martel.test.test_swissprot38.s" class="py-name" href="#" onclick="return doclink('link-42', 's', 'link-42');">s</a></tt> <tt class="py-op">=</tt> <tt class="py-string">"\n"</tt><tt class="py-op">.</tt><tt class="py-name">join</tt><tt class="py-op">(</tt><tt class="py-name">lines</tt><tt class="py-op">)</tt> </tt>
<a name="L49"></a><tt class="py-lineno"> 49</tt> <tt class="py-line"> <tt class="py-keyword">raise</tt> <tt class="py-name">TypeError</tt><tt class="py-op">(</tt><tt id="link-43" class="py-name"><a title="Martel.test.test_swissprot38.s" class="py-name" href="#" onclick="return doclink('link-43', 's', 'link-42');">s</a></tt><tt class="py-op">)</tt> </tt>
</div><a name="L50"></a><tt class="py-lineno"> 50</tt> <tt class="py-line"> </tt>
<a name="_must_not_have"></a><div id="_must_not_have-def"><a name="L51"></a><tt class="py-lineno"> 51</tt> <a class="py-toggle" href="#" id="_must_not_have-toggle" onclick="return toggle('_must_not_have');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#_must_not_have">_must_not_have</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">f</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="_must_not_have-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="_must_not_have-expanded"><a name="L52"></a><tt class="py-lineno"> 52</tt> <tt class="py-line"> <tt class="py-name">f</tt><tt class="py-op">.</tt><tt id="link-44" class="py-name"><a title="Martel.Time.tag" class="py-name" href="#" onclick="return doclink('link-44', 'tag', 'link-24');">tag</a></tt> </tt>
<a name="L53"></a><tt class="py-lineno"> 53</tt> <tt class="py-line"> <tt class="py-keyword">if</tt> <tt id="link-45" class="py-name"><a title="Martel.Time.tag" class="py-name" href="#" onclick="return doclink('link-45', 'tag', 'link-24');">tag</a></tt> <tt class="py-keyword">in</tt> <tt class="py-name">expr</tt><tt class="py-op">.</tt><tt id="link-46" class="py-name"><a title="Martel.Expression.Expression.group_names
Martel.Expression.ExpressionList.group_names
Martel.Expression.Group.group_names
Martel.Expression.HeaderFooter.group_names
Martel.Expression.MaxRepeat.group_names
Martel.Expression.ParseRecords.group_names
Martel.Expression.PassThrough.group_names" class="py-name" href="#" onclick="return doclink('link-46', 'group_names', 'link-27');">group_names</a></tt><tt class="py-op">(</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
<a name="L54"></a><tt class="py-lineno"> 54</tt> <tt class="py-line"> <tt class="py-keyword">raise</tt> <tt class="py-name">TypeError</tt><tt class="py-op">(</tt> </tt>
<a name="L55"></a><tt class="py-lineno"> 55</tt> <tt class="py-line"> <tt class="py-string">"group %r present in the expression but is not allowed"</tt> <tt class="py-op">%</tt> \ </tt>
<a name="L56"></a><tt class="py-lineno"> 56</tt> <tt class="py-line"> <tt class="py-op">(</tt><tt id="link-47" class="py-name"><a title="Martel.Time.tag" class="py-name" href="#" onclick="return doclink('link-47', 'tag', 'link-24');">tag</a></tt><tt class="py-op">,</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
</div><a name="L57"></a><tt class="py-lineno"> 57</tt> <tt class="py-line"> </tt>
<a name="L58"></a><tt class="py-lineno"> 58</tt> <tt class="py-line"> </tt>
<a name="L59"></a><tt class="py-lineno"> 59</tt> <tt class="py-line"><tt class="py-comment"># pre- Python 2.2 functions didn't allow attributes</tt> </tt>
<a name="_f"></a><div id="_f-def"><a name="L60"></a><tt class="py-lineno"> 60</tt> <a class="py-toggle" href="#" id="_f-toggle" onclick="return toggle('_f');">-</a><tt class="py-line"><tt class="py-comment"></tt><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#_f">_f</a><tt class="py-op">(</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="_f-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="_f-expanded"><a name="L61"></a><tt class="py-lineno"> 61</tt> <tt class="py-line"> <tt class="py-keyword">pass</tt> </tt>
</div><a name="L62"></a><tt class="py-lineno"> 62</tt> <tt class="py-line"><tt class="py-keyword">try</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">_f</tt><tt class="py-op">.</tt><tt id="link-48" 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-48', 'x', 'link-48');">x</a></tt> <tt class="py-op">=</tt> <tt class="py-number">1</tt> </tt>
<a name="L64"></a><tt class="py-lineno"> 64</tt> <tt class="py-line"> <tt id="link-49" class="py-name" targets="Variable Bio.Std._use_hack=Bio.Std-module.html#_use_hack"><a title="Bio.Std._use_hack" class="py-name" href="#" onclick="return doclink('link-49', '_use_hack', 'link-49');">_use_hack</a></tt> <tt class="py-op">=</tt> <tt class="py-number">0</tt> </tt>
<a name="L65"></a><tt class="py-lineno"> 65</tt> <tt class="py-line"><tt class="py-keyword">except</tt> <tt class="py-name">AttributeError</tt><tt class="py-op">:</tt> </tt>
<a name="L66"></a><tt class="py-lineno"> 66</tt> <tt class="py-line"> <tt id="link-50" class="py-name"><a title="Bio.Std._use_hack" class="py-name" href="#" onclick="return doclink('link-50', '_use_hack', 'link-49');">_use_hack</a></tt> <tt class="py-op">=</tt> <tt class="py-number">1</tt> </tt>
<a name="L67"></a><tt class="py-lineno"> 67</tt> <tt class="py-line"><tt class="py-keyword">del</tt> <tt class="py-name">_f</tt> </tt>
<a name="L68"></a><tt class="py-lineno"> 68</tt> <tt class="py-line"> </tt>
<a name="_check_name"></a><div id="_check_name-def"><a name="L69"></a><tt class="py-lineno"> 69</tt> <a class="py-toggle" href="#" id="_check_name-toggle" onclick="return toggle('_check_name');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#_check_name">_check_name</a><tt class="py-op">(</tt><tt class="py-param">f</tt><tt class="py-op">,</tt> <tt class="py-param">text</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="_check_name-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="_check_name-expanded"><a name="L70"></a><tt class="py-lineno"> 70</tt> <tt class="py-line"> <tt class="py-keyword">if</tt> <tt id="link-51" class="py-name" targets="Method Bio.EUtils.POM.ElementNode.text()=Bio.EUtils.POM.ElementNode-class.html#text,Method Bio.Prosite.Prodoc._RecordConsumer.text()=Bio.Prosite.Prodoc._RecordConsumer-class.html#text,Variable Martel.test.test_Iterator.text=Martel.test.test_Iterator-module.html#text,Variable Martel.test.test_ParseRecords.text=Martel.test.test_ParseRecords-module.html#text"><a title="Bio.EUtils.POM.ElementNode.text
Bio.Prosite.Prodoc._RecordConsumer.text
Martel.test.test_Iterator.text
Martel.test.test_ParseRecords.text" class="py-name" href="#" onclick="return doclink('link-51', 'text', 'link-51');">text</a></tt> <tt class="py-op">==</tt> <tt class="py-string">"record"</tt><tt class="py-op">:</tt> <tt class="py-comment"># XXX FIXME</tt> </tt>
<a name="L71"></a><tt class="py-lineno"> 71</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> </tt>
<a name="L72"></a><tt class="py-lineno"> 72</tt> <tt class="py-line"> <tt class="py-keyword">assert</tt> <tt id="link-52" class="py-name"><a title="Bio.Std.NS" class="py-name" href="#" onclick="return doclink('link-52', 'NS', 'link-5');">NS</a></tt> <tt class="py-op">+</tt> <tt class="py-name">f</tt><tt class="py-op">.</tt><tt class="py-name">func_name</tt> <tt class="py-op">==</tt> <tt id="link-53" class="py-name"><a title="Bio.EUtils.POM.ElementNode.text
Bio.Prosite.Prodoc._RecordConsumer.text
Martel.test.test_Iterator.text
Martel.test.test_ParseRecords.text" class="py-name" href="#" onclick="return doclink('link-53', 'text', 'link-51');">text</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt id="link-54" class="py-name"><a title="Bio.Std.NS" class="py-name" href="#" onclick="return doclink('link-54', 'NS', 'link-5');">NS</a></tt> <tt class="py-op">+</tt> <tt class="py-string">":"</tt> <tt class="py-op">+</tt> <tt class="py-name">f</tt><tt class="py-op">.</tt><tt class="py-name">func_name</tt><tt class="py-op">,</tt> <tt id="link-55" class="py-name"><a title="Bio.EUtils.POM.ElementNode.text
Bio.Prosite.Prodoc._RecordConsumer.text
Martel.test.test_Iterator.text
Martel.test.test_ParseRecords.text" class="py-name" href="#" onclick="return doclink('link-55', 'text', 'link-51');">text</a></tt><tt class="py-op">)</tt> </tt>
</div><a name="L73"></a><tt class="py-lineno"> 73</tt> <tt class="py-line"> </tt>
<a name="_check_attrs"></a><div id="_check_attrs-def"><a name="L74"></a><tt class="py-lineno"> 74</tt> <a class="py-toggle" href="#" id="_check_attrs-toggle" onclick="return toggle('_check_attrs');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#_check_attrs">_check_attrs</a><tt class="py-op">(</tt><tt class="py-param">attrs</tt><tt class="py-op">,</tt> <tt class="py-param">names</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="_check_attrs-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="_check_attrs-expanded"><a name="L75"></a><tt class="py-lineno"> 75</tt> <tt class="py-line"> <tt class="py-keyword">for</tt> <tt id="link-56" class="py-name"><a title="Bio.Encodings.IUPACEncoding.name" class="py-name" href="#" onclick="return doclink('link-56', 'name', 'link-20');">name</a></tt> <tt class="py-keyword">in</tt> <tt id="link-57" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-57', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">.</tt><tt id="link-58" class="py-name" targets="Method Bio.Crystal.Crystal.keys()=Bio.Crystal.Crystal-class.html#keys,Method Bio.EUtils.MultiDict._BaseMultiDict.keys()=Bio.EUtils.MultiDict._BaseMultiDict-class.html#keys,Method Bio.GenBank.NCBIDictionary.keys()=Bio.GenBank.NCBIDictionary-class.html#keys,Method Bio.Mindy.BaseDB.DictLookup.keys()=Bio.Mindy.BaseDB.DictLookup-class.html#keys,Method Bio.Mindy.BaseDB.OpenDB.keys()=Bio.Mindy.BaseDB.OpenDB-class.html#keys,Method Bio.Mindy.BerkeleyDB.PrimaryNamespace.keys()=Bio.Mindy.BerkeleyDB.PrimaryNamespace-class.html#keys,Method Bio.Mindy.BerkeleyDB.SecondaryNamespace.keys()=Bio.Mindy.BerkeleyDB.SecondaryNamespace-class.html#keys,Method Bio.Mindy.FlatDB.PrimaryNamespace.keys()=Bio.Mindy.FlatDB.PrimaryNamespace-class.html#keys,Method Bio.Mindy.FlatDB.PrimaryTable.keys()=Bio.Mindy.FlatDB.PrimaryTable-class.html#keys,Method Bio.Mindy.FlatDB.SecondaryNamespace.keys()=Bio.Mindy.FlatDB.SecondaryNamespace-class.html#keys,Method Bio.Mindy.FlatDB.SecondaryTable.keys()=Bio.Mindy.FlatDB.SecondaryTable-class.html#keys,Method Bio.PDB.AbstractPropertyMap.AbstractPropertyMap.keys()=Bio.PDB.AbstractPropertyMap.AbstractPropertyMap-class.html#keys,Method Bio.Prosite.ExPASyDictionary.keys()=Bio.Prosite.ExPASyDictionary-class.html#keys,Method Bio.Prosite.Prodoc.ExPASyDictionary.keys()=Bio.Prosite.Prodoc.ExPASyDictionary-class.html#keys,Method Bio.PubMed.Dictionary.keys()=Bio.PubMed.Dictionary-class.html#keys,Method Bio.SwissProt.SProt.Dictionary.keys()=Bio.SwissProt.SProt.Dictionary-class.html#keys,Method Bio.SwissProt.SProt.ExPASyDictionary.keys()=Bio.SwissProt.SProt.ExPASyDictionary-class.html#keys,Method Bio.config.Registry.Registry.keys()=Bio.config.Registry.Registry-class.html#keys,Method BioSQL.BioSeqDatabase.BioSeqDatabase.keys()=BioSQL.BioSeqDatabase.BioSeqDatabase-class.html#keys,Method BioSQL.BioSeqDatabase.DBServer.keys()=BioSQL.BioSeqDatabase.DBServer-class.html#keys,Method Martel.Parser.MartelAttributeList.keys()=Martel.Parser.MartelAttributeList-class.html#keys"><a title="Bio.Crystal.Crystal.keys
Bio.EUtils.MultiDict._BaseMultiDict.keys
Bio.GenBank.NCBIDictionary.keys
Bio.Mindy.BaseDB.DictLookup.keys
Bio.Mindy.BaseDB.OpenDB.keys
Bio.Mindy.BerkeleyDB.PrimaryNamespace.keys
Bio.Mindy.BerkeleyDB.SecondaryNamespace.keys
Bio.Mindy.FlatDB.PrimaryNamespace.keys
Bio.Mindy.FlatDB.PrimaryTable.keys
Bio.Mindy.FlatDB.SecondaryNamespace.keys
Bio.Mindy.FlatDB.SecondaryTable.keys
Bio.PDB.AbstractPropertyMap.AbstractPropertyMap.keys
Bio.Prosite.ExPASyDictionary.keys
Bio.Prosite.Prodoc.ExPASyDictionary.keys
Bio.PubMed.Dictionary.keys
Bio.SwissProt.SProt.Dictionary.keys
Bio.SwissProt.SProt.ExPASyDictionary.keys
Bio.config.Registry.Registry.keys
BioSQL.BioSeqDatabase.BioSeqDatabase.keys
BioSQL.BioSeqDatabase.DBServer.keys
Martel.Parser.MartelAttributeList.keys" class="py-name" href="#" onclick="return doclink('link-58', 'keys', 'link-58');">keys</a></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-keyword">if</tt> <tt id="link-59" class="py-name"><a title="Bio.Encodings.IUPACEncoding.name" class="py-name" href="#" onclick="return doclink('link-59', 'name', 'link-20');">name</a></tt> <tt class="py-keyword">not</tt> <tt class="py-keyword">in</tt> <tt id="link-60" class="py-name"><a title="Bio.Compass._Consumer.names" class="py-name" href="#" onclick="return doclink('link-60', 'names', 'link-29');">names</a></tt><tt class="py-op">:</tt> </tt>
<a name="L77"></a><tt class="py-lineno"> 77</tt> <tt class="py-line"> <tt class="py-keyword">raise</tt> <tt class="py-name">TypeError</tt><tt class="py-op">(</tt><tt class="py-string">"attr %r is not allowed here (valid terms: %s)"</tt> <tt class="py-op">%</tt> \ </tt>
<a name="L78"></a><tt class="py-lineno"> 78</tt> <tt class="py-line"> <tt class="py-op">(</tt><tt id="link-61" class="py-name"><a title="Bio.Encodings.IUPACEncoding.name" class="py-name" href="#" onclick="return doclink('link-61', 'name', 'link-20');">name</a></tt><tt class="py-op">,</tt> <tt id="link-62" class="py-name"><a title="Bio.Compass._Consumer.names" class="py-name" href="#" onclick="return doclink('link-62', 'names', 'link-29');">names</a></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 id="link-63" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-63', 'd', 'link-14');">d</a></tt> <tt class="py-op">=</tt> <tt id="link-64" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-64', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">.</tt><tt id="link-65" class="py-name" targets="Method Bio.Crystal.Crystal.copy()=Bio.Crystal.Crystal-class.html#copy,Method Bio.GA.Organism.Organism.copy()=Bio.GA.Organism.Organism-class.html#copy,Method Bio.GenBank.NCBIDictionary.copy()=Bio.GenBank.NCBIDictionary-class.html#copy,Method Bio.PDB.Vector'.Vector.copy()=Bio.PDB.Vector%27.Vector-class.html#copy,Method Bio.Prosite.ExPASyDictionary.copy()=Bio.Prosite.ExPASyDictionary-class.html#copy,Method Bio.Prosite.Pattern.PrositeTerm.copy()=Bio.Prosite.Pattern.PrositeTerm-class.html#copy,Method Bio.Prosite.Prodoc.ExPASyDictionary.copy()=Bio.Prosite.Prodoc.ExPASyDictionary-class.html#copy,Method Bio.PubMed.Dictionary.copy()=Bio.PubMed.Dictionary-class.html#copy,Method Bio.SwissProt.SProt.ExPASyDictionary.copy()=Bio.SwissProt.SProt.ExPASyDictionary-class.html#copy,Method Martel.Expression.Any.copy()=Martel.Expression.Any-class.html#copy,Method Martel.Expression.AnyEol.copy()=Martel.Expression.AnyEol-class.html#copy,Method Martel.Expression.Assert.copy()=Martel.Expression.Assert-class.html#copy,Method Martel.Expression.AtBeginning.copy()=Martel.Expression.AtBeginning-class.html#copy,Method Martel.Expression.AtEnd.copy()=Martel.Expression.AtEnd-class.html#copy,Method Martel.Expression.Debug.copy()=Martel.Expression.Debug-class.html#copy,Method Martel.Expression.Dot.copy()=Martel.Expression.Dot-class.html#copy,Method Martel.Expression.Expression.copy()=Martel.Expression.Expression-class.html#copy,Method Martel.Expression.ExpressionList.copy()=Martel.Expression.ExpressionList-class.html#copy,Method Martel.Expression.FastFeature.copy()=Martel.Expression.FastFeature-class.html#copy,Method Martel.Expression.Group.copy()=Martel.Expression.Group-class.html#copy,Method Martel.Expression.GroupRef.copy()=Martel.Expression.GroupRef-class.html#copy,Method Martel.Expression.HeaderFooter.copy()=Martel.Expression.HeaderFooter-class.html#copy,Method Martel.Expression.Literal.copy()=Martel.Expression.Literal-class.html#copy,Method Martel.Expression.MaxRepeat.copy()=Martel.Expression.MaxRepeat-class.html#copy,Method Martel.Expression.NullOp.copy()=Martel.Expression.NullOp-class.html#copy,Method Martel.Expression.ParseRecords.copy()=Martel.Expression.ParseRecords-class.html#copy,Method Martel.Expression.PassThrough.copy()=Martel.Expression.PassThrough-class.html#copy,Method Martel.Expression.Str.copy()=Martel.Expression.Str-class.html#copy,Method Martel.IterParser.IterHeaderFooter.copy()=Martel.IterParser.IterHeaderFooter-class.html#copy,Method Martel.IterParser.IterRecords.copy()=Martel.IterParser.IterRecords-class.html#copy,Method Martel.Iterator.IteratorRecords.copy()=Martel.Iterator.IteratorRecords-class.html#copy,Method Martel.Parser.HeaderFooterParser.copy()=Martel.Parser.HeaderFooterParser-class.html#copy,Method Martel.Parser.Parser.copy()=Martel.Parser.Parser-class.html#copy,Method Martel.Parser.RecordParser.copy()=Martel.Parser.RecordParser-class.html#copy"><a title="Bio.Crystal.Crystal.copy
Bio.GA.Organism.Organism.copy
Bio.GenBank.NCBIDictionary.copy
Bio.PDB.Vector'.Vector.copy
Bio.Prosite.ExPASyDictionary.copy
Bio.Prosite.Pattern.PrositeTerm.copy
Bio.Prosite.Prodoc.ExPASyDictionary.copy
Bio.PubMed.Dictionary.copy
Bio.SwissProt.SProt.ExPASyDictionary.copy
Martel.Expression.Any.copy
Martel.Expression.AnyEol.copy
Martel.Expression.Assert.copy
Martel.Expression.AtBeginning.copy
Martel.Expression.AtEnd.copy
Martel.Expression.Debug.copy
Martel.Expression.Dot.copy
Martel.Expression.Expression.copy
Martel.Expression.ExpressionList.copy
Martel.Expression.FastFeature.copy
Martel.Expression.Group.copy
Martel.Expression.GroupRef.copy
Martel.Expression.HeaderFooter.copy
Martel.Expression.Literal.copy
Martel.Expression.MaxRepeat.copy
Martel.Expression.NullOp.copy
Martel.Expression.ParseRecords.copy
Martel.Expression.PassThrough.copy
Martel.Expression.Str.copy
Martel.IterParser.IterHeaderFooter.copy
Martel.IterParser.IterRecords.copy
Martel.Iterator.IteratorRecords.copy
Martel.Parser.HeaderFooterParser.copy
Martel.Parser.Parser.copy
Martel.Parser.RecordParser.copy" class="py-name" href="#" onclick="return doclink('link-65', 'copy', 'link-65');">copy</a></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-keyword">for</tt> <tt id="link-66" class="py-name"><a title="Bio.Encodings.IUPACEncoding.name" class="py-name" href="#" onclick="return doclink('link-66', 'name', 'link-20');">name</a></tt> <tt class="py-keyword">in</tt> <tt id="link-67" class="py-name"><a title="Bio.Compass._Consumer.names" class="py-name" href="#" onclick="return doclink('link-67', 'names', 'link-29');">names</a></tt><tt class="py-op">:</tt> </tt>
<a name="L81"></a><tt class="py-lineno"> 81</tt> <tt class="py-line"> <tt class="py-keyword">if</tt> <tt class="py-keyword">not</tt> <tt id="link-68" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-68', 'd', 'link-14');">d</a></tt><tt class="py-op">.</tt><tt id="link-69" 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-69', 'has_key', 'link-19');">has_key</a></tt><tt class="py-op">(</tt><tt id="link-70" class="py-name"><a title="Bio.Encodings.IUPACEncoding.name" class="py-name" href="#" onclick="return doclink('link-70', 'name', 'link-20');">name</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 id="link-71" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-71', 'd', 'link-14');">d</a></tt><tt class="py-op">[</tt><tt id="link-72" class="py-name"><a title="Bio.Encodings.IUPACEncoding.name" class="py-name" href="#" onclick="return doclink('link-72', 'name', 'link-20');">name</a></tt><tt class="py-op">]</tt> <tt class="py-op">=</tt> <tt class="py-name">None</tt> </tt>
<a name="L83"></a><tt class="py-lineno"> 83</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt id="link-73" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-73', 'd', 'link-14');">d</a></tt> </tt>
</div><a name="L84"></a><tt class="py-lineno"> 84</tt> <tt class="py-line"> </tt>
<a name="L85"></a><tt class="py-lineno"> 85</tt> <tt class="py-line"><tt class="py-keyword">if</tt> <tt class="py-keyword">not</tt> <tt id="link-74" class="py-name"><a title="Bio.Std._use_hack" class="py-name" href="#" onclick="return doclink('link-74', '_use_hack', 'link-49');">_use_hack</a></tt><tt class="py-op">:</tt> </tt>
<a name="_settag"></a><div id="_settag-def"><a name="L86"></a><tt class="py-lineno"> 86</tt> <a class="py-toggle" href="#" id="_settag-toggle" onclick="return toggle('_settag');">-</a><tt class="py-line"> <tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#_settag">_settag</a><tt class="py-op">(</tt><tt class="py-param">f</tt><tt class="py-op">,</tt> <tt class="py-param">tag</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="_settag-collapsed" style="display:none;" pad="+++" indent="++++++++"></div><div id="_settag-expanded"><a name="L87"></a><tt class="py-lineno"> 87</tt> <tt class="py-line"> <tt id="link-75" class="py-name" targets="Function Bio.Std._check_name()=Bio.Std-module.html#_check_name"><a title="Bio.Std._check_name" class="py-name" href="#" onclick="return doclink('link-75', '_check_name', 'link-75');">_check_name</a></tt><tt class="py-op">(</tt><tt class="py-name">f</tt><tt class="py-op">,</tt> <tt id="link-76" class="py-name"><a title="Martel.Time.tag" class="py-name" href="#" onclick="return doclink('link-76', 'tag', 'link-24');">tag</a></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">f</tt><tt class="py-op">.</tt><tt id="link-77" class="py-name"><a title="Martel.Time.tag" class="py-name" href="#" onclick="return doclink('link-77', 'tag', 'link-24');">tag</a></tt> <tt class="py-op">=</tt> <tt id="link-78" class="py-name"><a title="Martel.Time.tag" class="py-name" href="#" onclick="return doclink('link-78', 'tag', 'link-24');">tag</a></tt> </tt>
</div><a name="L89"></a><tt class="py-lineno"> 89</tt> <tt class="py-line"><tt class="py-keyword">else</tt><tt class="py-op">:</tt> </tt>
<a name="L90"></a><tt class="py-lineno"> 90</tt> <tt class="py-line"> <tt class="py-comment"># Convert the functions into callable objects</tt> </tt>
<a name="StdTerm"></a><div id="StdTerm-def"><a name="L91"></a><tt class="py-lineno"> 91</tt> <a class="py-toggle" href="#" id="StdTerm-toggle" onclick="return toggle('StdTerm');">-</a><tt class="py-line"><tt class="py-comment"></tt> <tt class="py-keyword">class</tt> <a class="py-def-name" href="Bio.Std.StdTerm-class.html">StdTerm</a><tt class="py-op">:</tt> </tt>
</div><div id="StdTerm-collapsed" style="display:none;" pad="+++" indent="++++++++"></div><div id="StdTerm-expanded"><a name="StdTerm.__init__"></a><div id="StdTerm.__init__-def"><a name="L92"></a><tt class="py-lineno"> 92</tt> <a class="py-toggle" href="#" id="StdTerm.__init__-toggle" onclick="return toggle('StdTerm.__init__');">-</a><tt class="py-line"> <tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std.StdTerm-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">func</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="StdTerm.__init__-collapsed" style="display:none;" pad="+++" indent="++++++++++++++++"></div><div id="StdTerm.__init__-expanded"><a name="L93"></a><tt class="py-lineno"> 93</tt> <tt class="py-line"> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">_func</tt> <tt class="py-op">=</tt> <tt class="py-name">func</tt> </tt>
</div><a name="StdTerm.__call__"></a><div id="StdTerm.__call__-def"><a name="L94"></a><tt class="py-lineno"> 94</tt> <a class="py-toggle" href="#" id="StdTerm.__call__-toggle" onclick="return toggle('StdTerm.__call__');">-</a><tt class="py-line"> <tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std.StdTerm-class.html#__call__">__call__</a><tt class="py-op">(</tt><tt class="py-param">self</tt><tt class="py-op">,</tt> <tt class="py-op">*</tt><tt class="py-param">args</tt><tt class="py-op">,</tt> <tt class="py-op">**</tt><tt class="py-param">kwargs</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="StdTerm.__call__-collapsed" style="display:none;" pad="+++" indent="++++++++++++++++"></div><div id="StdTerm.__call__-expanded"><a name="L95"></a><tt class="py-lineno"> 95</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt class="py-name">self</tt><tt class="py-op">.</tt><tt class="py-name">_func</tt><tt class="py-op">(</tt> <tt class="py-op">*</tt><tt class="py-name">args</tt><tt class="py-op">,</tt> <tt class="py-op">**</tt><tt class="py-name">kwargs</tt><tt class="py-op">)</tt> </tt>
</div></div><a name="L96"></a><tt class="py-lineno"> 96</tt> <tt class="py-line"> </tt>
<a name="_settag"></a><div id="_settag-def"><a name="L97"></a><tt class="py-lineno"> 97</tt> <a class="py-toggle" href="#" id="_settag-toggle" onclick="return toggle('_settag');">-</a><tt class="py-line"> <tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#_settag">_settag</a><tt class="py-op">(</tt><tt class="py-param">f</tt><tt class="py-op">,</tt> <tt class="py-param">tag</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="_settag-collapsed" style="display:none;" pad="+++" indent="++++++++"></div><div id="_settag-expanded"><a name="L98"></a><tt class="py-lineno"> 98</tt> <tt class="py-line"> <tt id="link-79" class="py-name"><a title="Bio.Std._check_name" class="py-name" href="#" onclick="return doclink('link-79', '_check_name', 'link-75');">_check_name</a></tt><tt class="py-op">(</tt><tt class="py-name">f</tt><tt class="py-op">,</tt> <tt id="link-80" class="py-name"><a title="Martel.Time.tag" class="py-name" href="#" onclick="return doclink('link-80', 'tag', 'link-24');">tag</a></tt><tt class="py-op">)</tt> </tt>
<a name="L99"></a><tt class="py-lineno"> 99</tt> <tt class="py-line"> <tt id="link-81" class="py-name"><a title="Bio.MarkovModel.x
Bio.Statistics.lowess.x" class="py-name" href="#" onclick="return doclink('link-81', 'x', 'link-48');">x</a></tt> <tt class="py-op">=</tt> <tt class="py-name">globals</tt><tt class="py-op">(</tt><tt class="py-op">)</tt><tt class="py-op">[</tt><tt class="py-name">f</tt><tt class="py-op">.</tt><tt class="py-name">func_name</tt><tt class="py-op">]</tt> <tt class="py-op">=</tt> <tt id="link-82" class="py-name" targets="Class Bio.Std.StdTerm=Bio.Std.StdTerm-class.html"><a title="Bio.Std.StdTerm" class="py-name" href="#" onclick="return doclink('link-82', 'StdTerm', 'link-82');">StdTerm</a></tt><tt class="py-op">(</tt><tt class="py-name">f</tt><tt class="py-op">)</tt> </tt>
<a name="L100"></a><tt class="py-lineno">100</tt> <tt class="py-line"> <tt id="link-83" class="py-name"><a title="Bio.MarkovModel.x
Bio.Statistics.lowess.x" class="py-name" href="#" onclick="return doclink('link-83', 'x', 'link-48');">x</a></tt><tt class="py-op">.</tt><tt id="link-84" class="py-name"><a title="Martel.Time.tag" class="py-name" href="#" onclick="return doclink('link-84', 'tag', 'link-24');">tag</a></tt> <tt class="py-op">=</tt> <tt id="link-85" class="py-name"><a title="Martel.Time.tag" class="py-name" href="#" onclick="return doclink('link-85', 'tag', 'link-24');">tag</a></tt> </tt>
</div><a name="L101"></a><tt class="py-lineno">101</tt> <tt class="py-line"> </tt>
<a name="L102"></a><tt class="py-lineno">102</tt> <tt class="py-line"><tt class="py-comment">################ identifier, description, and cross-references</tt> </tt>
<a name="record"></a><div id="record-def"><a name="L103"></a><tt class="py-lineno">103</tt> <a class="py-toggle" href="#" id="record-toggle" onclick="return toggle('record');">-</a><tt class="py-line"><tt class="py-comment"></tt><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#record">record</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">attrs</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="record-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="record-expanded"><a name="L104"></a><tt class="py-lineno">104</tt> <tt class="py-line"> <tt id="link-86" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-86', 'attrs', 'link-9');">attrs</a></tt> <tt class="py-op">=</tt> <tt id="link-87" class="py-name" targets="Function Bio.Std._check_attrs()=Bio.Std-module.html#_check_attrs"><a title="Bio.Std._check_attrs" class="py-name" href="#" onclick="return doclink('link-87', '_check_attrs', 'link-87');">_check_attrs</a></tt><tt class="py-op">(</tt><tt id="link-88" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-88', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-string">"format"</tt><tt class="py-op">,</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L105"></a><tt class="py-lineno">105</tt> <tt class="py-line"> <tt id="link-89" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-89', 'd', 'link-14');">d</a></tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-string">"xmlns:bioformat"</tt><tt class="py-op">:</tt> <tt id="link-90" class="py-name"><a title="Bio.Std.XMLNS" class="py-name" href="#" onclick="return doclink('link-90', 'XMLNS', 'link-7');">XMLNS</a></tt><tt class="py-op">}</tt> </tt>
<a name="L106"></a><tt class="py-lineno">106</tt> <tt class="py-line"> <tt id="link-91" class="py-name" targets="Function Bio.Std._set_if_given()=Bio.Std-module.html#_set_if_given"><a title="Bio.Std._set_if_given" class="py-name" href="#" onclick="return doclink('link-91', '_set_if_given', 'link-91');">_set_if_given</a></tt><tt class="py-op">(</tt><tt id="link-92" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-92', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-string">"format"</tt><tt class="py-op">,</tt> <tt id="link-93" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-93', 'd', 'link-14');">d</a></tt><tt class="py-op">)</tt> </tt>
<a name="L107"></a><tt class="py-lineno">107</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt id="link-94" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-94', 'Group', 'link-1');">Group</a></tt><tt class="py-op">(</tt><tt class="py-string">"record"</tt><tt class="py-op">,</tt> <tt class="py-name">expr</tt><tt class="py-op">,</tt> <tt id="link-95" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-95', 'd', 'link-14');">d</a></tt><tt class="py-op">)</tt> <tt class="py-comment"># XXX FIXME</tt> </tt>
</div><a name="L108"></a><tt class="py-lineno">108</tt> <tt class="py-line"><tt id="link-96" class="py-name" targets="Function Bio.Std._settag()=Bio.Std-module.html#_settag"><a title="Bio.Std._settag" class="py-name" href="#" onclick="return doclink('link-96', '_settag', 'link-96');">_settag</a></tt><tt class="py-op">(</tt><tt id="link-97" class="py-name" targets="Variable Bio.Emboss.primer3_format.record=Bio.Emboss.primer3_format-module.html#record,Variable Bio.Emboss.primersearch_format.record=Bio.Emboss.primersearch_format-module.html#record,Method Bio.GFF.Feature.record()=Bio.GFF.Feature-class.html#record,Variable Bio.LocusLink.web_parse.record=Bio.LocusLink.web_parse-module.html#record,Variable Bio.Ndb.record=Bio.Ndb-module.html#record,Function Bio.Std.record()=Bio.Std-module.html#record,Variable Bio.expressions.blocks.record=Bio.expressions.blocks-module.html#record,Variable Bio.expressions.embl.embl65.record=Bio.expressions.embl.embl65-module.html#record,Variable Bio.expressions.fasta.record=Bio.expressions.fasta-module.html#record,Variable Bio.expressions.genbank.record=Bio.expressions.genbank-module.html#record,Variable Bio.expressions.hmmpfam.record=Bio.expressions.hmmpfam-module.html#record,Variable Bio.expressions.swissprot.ipi.record=Bio.expressions.swissprot.ipi-module.html#record,Variable Bio.expressions.swissprot.speclist.record=Bio.expressions.swissprot.speclist-module.html#record,Variable Bio.expressions.swissprot.sprot38.record=Bio.expressions.swissprot.sprot38-module.html#record,Variable Bio.expressions.swissprot.sprot40.record=Bio.expressions.swissprot.sprot40-module.html#record,Variable Martel.test.test_swissprot38.record=Martel.test.test_swissprot38-module.html#record,Variable Martel.test.testformats.swissprot38.record=Martel.test.testformats.swissprot38-module.html#record"><a title="Bio.Emboss.primer3_format.record
Bio.Emboss.primersearch_format.record
Bio.GFF.Feature.record
Bio.LocusLink.web_parse.record
Bio.Ndb.record
Bio.Std.record
Bio.expressions.blocks.record
Bio.expressions.embl.embl65.record
Bio.expressions.fasta.record
Bio.expressions.genbank.record
Bio.expressions.hmmpfam.record
Bio.expressions.swissprot.ipi.record
Bio.expressions.swissprot.speclist.record
Bio.expressions.swissprot.sprot38.record
Bio.expressions.swissprot.sprot40.record
Martel.test.test_swissprot38.record
Martel.test.testformats.swissprot38.record" class="py-name" href="#" onclick="return doclink('link-97', 'record', 'link-97');">record</a></tt><tt class="py-op">,</tt> <tt class="py-string">"record"</tt><tt class="py-op">)</tt> <tt class="py-comment"># XXX AND FIXME</tt> </tt>
<a name="L109"></a><tt class="py-lineno">109</tt> <tt class="py-line"> </tt>
<a name="L110"></a><tt class="py-lineno">110</tt> <tt class="py-line"> </tt>
<a name="dbid"></a><div id="dbid-def"><a name="L111"></a><tt class="py-lineno">111</tt> <a class="py-toggle" href="#" id="dbid-toggle" onclick="return toggle('dbid');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#dbid">dbid</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">attrs</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="dbid-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="dbid-expanded"><a name="L112"></a><tt class="py-lineno">112</tt> <tt class="py-line"> <tt id="link-98" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-98', 'attrs', 'link-9');">attrs</a></tt> <tt class="py-op">=</tt> <tt id="link-99" class="py-name"><a title="Bio.Std._check_attrs" class="py-name" href="#" onclick="return doclink('link-99', '_check_attrs', 'link-87');">_check_attrs</a></tt><tt class="py-op">(</tt><tt id="link-100" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-100', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-string">"type"</tt><tt class="py-op">,</tt> <tt class="py-string">"style"</tt><tt class="py-op">,</tt> <tt class="py-string">"dbname"</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L113"></a><tt class="py-lineno">113</tt> <tt class="py-line"> <tt id="link-101" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-101', 'd', 'link-14');">d</a></tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt> </tt>
<a name="L114"></a><tt class="py-lineno">114</tt> <tt class="py-line"> <tt id="link-102" class="py-name"><a title="Bio.Std._set_if_given" class="py-name" href="#" onclick="return doclink('link-102', '_set_if_given', 'link-91');">_set_if_given</a></tt><tt class="py-op">(</tt><tt id="link-103" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-103', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-string">"type"</tt><tt class="py-op">,</tt> <tt id="link-104" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-104', 'd', 'link-14');">d</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-string">"primary"</tt><tt class="py-op">,</tt> <tt class="py-string">"accession"</tt><tt class="py-op">,</tt> <tt class="py-string">"secondary"</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L115"></a><tt class="py-lineno">115</tt> <tt class="py-line"> <tt id="link-105" class="py-name"><a title="Bio.Std._set_if_given" class="py-name" href="#" onclick="return doclink('link-105', '_set_if_given', 'link-91');">_set_if_given</a></tt><tt class="py-op">(</tt><tt id="link-106" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-106', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-string">"dbname"</tt><tt class="py-op">,</tt> <tt id="link-107" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-107', 'd', 'link-14');">d</a></tt><tt class="py-op">)</tt> </tt>
<a name="L116"></a><tt class="py-lineno">116</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt id="link-108" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-108', 'Group', 'link-1');">Group</a></tt><tt class="py-op">(</tt><tt id="link-109" class="py-name"><a title="Bio.Std.NS" class="py-name" href="#" onclick="return doclink('link-109', 'NS', 'link-5');">NS</a></tt> <tt class="py-op">+</tt> <tt class="py-string">"dbid"</tt><tt class="py-op">,</tt> <tt class="py-name">expr</tt><tt class="py-op">,</tt> <tt id="link-110" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-110', 'd', 'link-14');">d</a></tt><tt class="py-op">)</tt> </tt>
</div><a name="L117"></a><tt class="py-lineno">117</tt> <tt class="py-line"><tt id="link-111" class="py-name"><a title="Bio.Std._settag" class="py-name" href="#" onclick="return doclink('link-111', '_settag', 'link-96');">_settag</a></tt><tt class="py-op">(</tt><tt id="link-112" class="py-name" targets="Function Bio.Std.dbid()=Bio.Std-module.html#dbid"><a title="Bio.Std.dbid" class="py-name" href="#" onclick="return doclink('link-112', 'dbid', 'link-112');">dbid</a></tt><tt class="py-op">,</tt> <tt id="link-113" class="py-name"><a title="Bio.Std.NS" class="py-name" href="#" onclick="return doclink('link-113', 'NS', 'link-5');">NS</a></tt> <tt class="py-op">+</tt> <tt class="py-string">"dbid"</tt><tt class="py-op">)</tt> </tt>
<a name="L118"></a><tt class="py-lineno">118</tt> <tt class="py-line"> </tt>
<a name="description_block"></a><div id="description_block-def"><a name="L119"></a><tt class="py-lineno">119</tt> <a class="py-toggle" href="#" id="description_block-toggle" onclick="return toggle('description_block');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#description_block">description_block</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">attrs</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="description_block-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="description_block-expanded"><a name="L120"></a><tt class="py-lineno">120</tt> <tt class="py-line"> <tt id="link-114" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-114', 'attrs', 'link-9');">attrs</a></tt> <tt class="py-op">=</tt> <tt id="link-115" class="py-name"><a title="Bio.Std._check_attrs" class="py-name" href="#" onclick="return doclink('link-115', '_check_attrs', 'link-87');">_check_attrs</a></tt><tt class="py-op">(</tt><tt id="link-116" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-116', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-string">"join"</tt><tt class="py-op">,</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 id="link-117" class="py-name" targets="Function Bio.Std._must_have()=Bio.Std-module.html#_must_have"><a title="Bio.Std._must_have" class="py-name" href="#" onclick="return doclink('link-117', '_must_have', 'link-117');">_must_have</a></tt><tt class="py-op">(</tt><tt class="py-name">expr</tt><tt class="py-op">,</tt> <tt id="link-118" class="py-name" targets="Method Bio.Blast.NCBIStandalone._DescriptionConsumer.description()=Bio.Blast.NCBIStandalone._DescriptionConsumer-class.html#description,Method Bio.Enzyme._RecordConsumer.description()=Bio.Enzyme._RecordConsumer-class.html#description,Method Bio.Prosite._RecordConsumer.description()=Bio.Prosite._RecordConsumer-class.html#description,Function Bio.Std.description()=Bio.Std-module.html#description,Method Bio.SwissProt.SProt._RecordConsumer.description()=Bio.SwissProt.SProt._RecordConsumer-class.html#description,Method Bio.SwissProt.SProt._SequenceConsumer.description()=Bio.SwissProt.SProt._SequenceConsumer-class.html#description,Variable Martel.setup.run_local_tests.description=Martel.setup.run_local_tests-class.html#description"><a title="Bio.Blast.NCBIStandalone._DescriptionConsumer.description
Bio.Enzyme._RecordConsumer.description
Bio.Prosite._RecordConsumer.description
Bio.Std.description
Bio.SwissProt.SProt._RecordConsumer.description
Bio.SwissProt.SProt._SequenceConsumer.description
Martel.setup.run_local_tests.description" class="py-name" href="#" onclick="return doclink('link-118', 'description', 'link-118');">description</a></tt><tt class="py-op">)</tt> </tt>
<a name="L122"></a><tt class="py-lineno">122</tt> <tt class="py-line"> <tt id="link-119" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-119', 'd', 'link-14');">d</a></tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt> </tt>
<a name="L123"></a><tt class="py-lineno">123</tt> <tt class="py-line"> <tt id="link-120" class="py-name"><a title="Bio.Std._set_if_given" class="py-name" href="#" onclick="return doclink('link-120', '_set_if_given', 'link-91');">_set_if_given</a></tt><tt class="py-op">(</tt><tt id="link-121" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-121', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-string">"join"</tt><tt class="py-op">,</tt> <tt id="link-122" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-122', 'd', 'link-14');">d</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-string">"english"</tt><tt class="py-op">,</tt> <tt class="py-string">"concat"</tt><tt class="py-op">,</tt> <tt class="py-string">"space"</tt><tt class="py-op">,</tt> <tt class="py-string">"newline"</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L124"></a><tt class="py-lineno">124</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt id="link-123" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-123', 'Group', 'link-1');">Group</a></tt><tt class="py-op">(</tt><tt id="link-124" class="py-name"><a title="Bio.Std.NS" class="py-name" href="#" onclick="return doclink('link-124', 'NS', 'link-5');">NS</a></tt> <tt class="py-op">+</tt> <tt class="py-string">"description_block"</tt><tt class="py-op">,</tt> <tt class="py-name">expr</tt><tt class="py-op">,</tt> <tt id="link-125" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-125', 'd', 'link-14');">d</a></tt><tt class="py-op">)</tt> </tt>
</div><a name="L125"></a><tt class="py-lineno">125</tt> <tt class="py-line"><tt id="link-126" class="py-name"><a title="Bio.Std._settag" class="py-name" href="#" onclick="return doclink('link-126', '_settag', 'link-96');">_settag</a></tt><tt class="py-op">(</tt><tt id="link-127" class="py-name" targets="Variable Bio.CDD.cdd_format.description_block=Bio.CDD.cdd_format-module.html#description_block,Function Bio.Std.description_block()=Bio.Std-module.html#description_block"><a title="Bio.CDD.cdd_format.description_block
Bio.Std.description_block" class="py-name" href="#" onclick="return doclink('link-127', 'description_block', 'link-127');">description_block</a></tt><tt class="py-op">,</tt> <tt id="link-128" class="py-name"><a title="Bio.Std.NS" class="py-name" href="#" onclick="return doclink('link-128', 'NS', 'link-5');">NS</a></tt> <tt class="py-op">+</tt> <tt class="py-string">"description_block"</tt><tt class="py-op">)</tt> </tt>
<a name="L126"></a><tt class="py-lineno">126</tt> <tt class="py-line"> </tt>
<a name="description"></a><div id="description-def"><a name="L127"></a><tt class="py-lineno">127</tt> <a class="py-toggle" href="#" id="description-toggle" onclick="return toggle('description');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#description">description</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">attrs</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="description-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="description-expanded"><a name="L128"></a><tt class="py-lineno">128</tt> <tt class="py-line"> <tt id="link-129" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-129', 'attrs', 'link-9');">attrs</a></tt> <tt class="py-op">=</tt> <tt id="link-130" class="py-name"><a title="Bio.Std._check_attrs" class="py-name" href="#" onclick="return doclink('link-130', '_check_attrs', 'link-87');">_check_attrs</a></tt><tt class="py-op">(</tt><tt id="link-131" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-131', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L129"></a><tt class="py-lineno">129</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt id="link-132" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-132', 'Group', 'link-1');">Group</a></tt><tt class="py-op">(</tt><tt id="link-133" class="py-name"><a title="Bio.Std.NS" class="py-name" href="#" onclick="return doclink('link-133', 'NS', 'link-5');">NS</a></tt> <tt class="py-op">+</tt> <tt class="py-string">"description"</tt><tt class="py-op">,</tt> <tt class="py-name">expr</tt><tt class="py-op">)</tt> </tt>
</div><a name="L130"></a><tt class="py-lineno">130</tt> <tt class="py-line"><tt id="link-134" class="py-name"><a title="Bio.Std._settag" class="py-name" href="#" onclick="return doclink('link-134', '_settag', 'link-96');">_settag</a></tt><tt class="py-op">(</tt><tt id="link-135" class="py-name"><a title="Bio.Blast.NCBIStandalone._DescriptionConsumer.description
Bio.Enzyme._RecordConsumer.description
Bio.Prosite._RecordConsumer.description
Bio.Std.description
Bio.SwissProt.SProt._RecordConsumer.description
Bio.SwissProt.SProt._SequenceConsumer.description
Martel.setup.run_local_tests.description" class="py-name" href="#" onclick="return doclink('link-135', 'description', 'link-118');">description</a></tt><tt class="py-op">,</tt> <tt id="link-136" class="py-name"><a title="Bio.Std.NS" class="py-name" href="#" onclick="return doclink('link-136', 'NS', 'link-5');">NS</a></tt> <tt class="py-op">+</tt> <tt class="py-string">"description"</tt><tt class="py-op">)</tt> </tt>
<a name="L131"></a><tt class="py-lineno">131</tt> <tt class="py-line"> </tt>
<a name="description_line"></a><div id="description_line-def"><a name="L132"></a><tt class="py-lineno">132</tt> <a class="py-toggle" href="#" id="description_line-toggle" onclick="return toggle('description_line');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#description_line">description_line</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">attrs</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="description_line-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="description_line-expanded"><a name="L133"></a><tt class="py-lineno">133</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt id="link-137" class="py-name"><a title="Bio.CDD.cdd_format.description_block
Bio.Std.description_block" class="py-name" href="#" onclick="return doclink('link-137', 'description_block', 'link-127');">description_block</a></tt><tt class="py-op">(</tt><tt id="link-138" class="py-name"><a title="Bio.Blast.NCBIStandalone._DescriptionConsumer.description
Bio.Enzyme._RecordConsumer.description
Bio.Prosite._RecordConsumer.description
Bio.Std.description
Bio.SwissProt.SProt._RecordConsumer.description
Bio.SwissProt.SProt._SequenceConsumer.description
Martel.setup.run_local_tests.description" class="py-name" href="#" onclick="return doclink('link-138', 'description', 'link-118');">description</a></tt><tt class="py-op">(</tt><tt class="py-name">expr</tt><tt class="py-op">,</tt> <tt id="link-139" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-139', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
</div><a name="L134"></a><tt class="py-lineno">134</tt> <tt class="py-line"> </tt>
<a name="fast_dbxref"></a><div id="fast_dbxref-def"><a name="L135"></a><tt class="py-lineno">135</tt> <a class="py-toggle" href="#" id="fast_dbxref-toggle" onclick="return toggle('fast_dbxref');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#fast_dbxref">fast_dbxref</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">attrs</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="fast_dbxref-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="fast_dbxref-expanded"><a name="L136"></a><tt class="py-lineno">136</tt> <tt class="py-line"> <tt id="link-140" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-140', 'attrs', 'link-9');">attrs</a></tt> <tt class="py-op">=</tt> <tt id="link-141" class="py-name"><a title="Bio.Std._check_attrs" class="py-name" href="#" onclick="return doclink('link-141', '_check_attrs', 'link-87');">_check_attrs</a></tt><tt class="py-op">(</tt><tt id="link-142" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-142', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-string">"style"</tt><tt class="py-op">,</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L137"></a><tt class="py-lineno">137</tt> <tt class="py-line"> <tt id="link-143" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-143', 'd', 'link-14');">d</a></tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt> </tt>
<a name="L138"></a><tt class="py-lineno">138</tt> <tt class="py-line"> <tt id="link-144" class="py-name"><a title="Bio.Std._set_if_given" class="py-name" href="#" onclick="return doclink('link-144', '_set_if_given', 'link-91');">_set_if_given</a></tt><tt class="py-op">(</tt><tt id="link-145" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-145', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-string">"style"</tt><tt class="py-op">,</tt> <tt id="link-146" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-146', 'd', 'link-14');">d</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-string">"sp-general"</tt><tt class="py-op">,</tt> <tt class="py-string">"sp-prosite"</tt><tt class="py-op">,</tt> <tt class="py-string">"sp-embl"</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L139"></a><tt class="py-lineno">139</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt id="link-147" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-147', 'Group', 'link-1');">Group</a></tt><tt class="py-op">(</tt><tt id="link-148" class="py-name"><a title="Bio.Std.NS" class="py-name" href="#" onclick="return doclink('link-148', 'NS', 'link-5');">NS</a></tt> <tt class="py-op">+</tt> <tt class="py-string">"fast_dbxref"</tt><tt class="py-op">,</tt> <tt class="py-name">expr</tt><tt class="py-op">,</tt> <tt id="link-149" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-149', 'd', 'link-14');">d</a></tt><tt class="py-op">)</tt> </tt>
</div><a name="L140"></a><tt class="py-lineno">140</tt> <tt class="py-line"> </tt>
<a name="dbxref"></a><div id="dbxref-def"><a name="L141"></a><tt class="py-lineno">141</tt> <a class="py-toggle" href="#" id="dbxref-toggle" onclick="return toggle('dbxref');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#dbxref">dbxref</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">attrs</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="dbxref-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="dbxref-expanded"><a name="L142"></a><tt class="py-lineno">142</tt> <tt class="py-line"> <tt id="link-150" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-150', 'attrs', 'link-9');">attrs</a></tt> <tt class="py-op">=</tt> <tt id="link-151" class="py-name"><a title="Bio.Std._check_attrs" class="py-name" href="#" onclick="return doclink('link-151', '_check_attrs', 'link-87');">_check_attrs</a></tt><tt class="py-op">(</tt><tt id="link-152" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-152', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-string">"style"</tt><tt class="py-op">,</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L143"></a><tt class="py-lineno">143</tt> <tt class="py-line"> <tt id="link-153" class="py-name"><a title="Bio.Std._must_have" class="py-name" href="#" onclick="return doclink('link-153', '_must_have', 'link-117');">_must_have</a></tt><tt class="py-op">(</tt><tt class="py-name">expr</tt><tt class="py-op">,</tt> <tt id="link-154" class="py-name" targets="Function Bio.Std.dbxref_dbid()=Bio.Std-module.html#dbxref_dbid"><a title="Bio.Std.dbxref_dbid" class="py-name" href="#" onclick="return doclink('link-154', 'dbxref_dbid', 'link-154');">dbxref_dbid</a></tt><tt class="py-op">)</tt> </tt>
<a name="L144"></a><tt class="py-lineno">144</tt> <tt class="py-line"> <tt id="link-155" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-155', 'd', 'link-14');">d</a></tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt> </tt>
<a name="L145"></a><tt class="py-lineno">145</tt> <tt class="py-line"> <tt id="link-156" class="py-name" targets="Function Bio.Std._complain_if_given()=Bio.Std-module.html#_complain_if_given"><a title="Bio.Std._complain_if_given" class="py-name" href="#" onclick="return doclink('link-156', '_complain_if_given', 'link-156');">_complain_if_given</a></tt><tt class="py-op">(</tt><tt id="link-157" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-157', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-string">"style"</tt><tt class="py-op">)</tt> </tt>
<a name="L146"></a><tt class="py-lineno">146</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt id="link-158" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-158', 'Group', 'link-1');">Group</a></tt><tt class="py-op">(</tt><tt id="link-159" class="py-name"><a title="Bio.Std.NS" class="py-name" href="#" onclick="return doclink('link-159', 'NS', 'link-5');">NS</a></tt> <tt class="py-op">+</tt> <tt class="py-string">"dbxref"</tt><tt class="py-op">,</tt> <tt class="py-name">expr</tt><tt class="py-op">,</tt> <tt id="link-160" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-160', 'd', 'link-14');">d</a></tt><tt class="py-op">)</tt> </tt>
</div><a name="L147"></a><tt class="py-lineno">147</tt> <tt class="py-line"><tt id="link-161" class="py-name"><a title="Bio.Std._settag" class="py-name" href="#" onclick="return doclink('link-161', '_settag', 'link-96');">_settag</a></tt><tt class="py-op">(</tt><tt id="link-162" class="py-name" targets="Function Bio.Std.dbxref()=Bio.Std-module.html#dbxref"><a title="Bio.Std.dbxref" class="py-name" href="#" onclick="return doclink('link-162', 'dbxref', 'link-162');">dbxref</a></tt><tt class="py-op">,</tt> <tt id="link-163" class="py-name"><a title="Bio.Std.NS" class="py-name" href="#" onclick="return doclink('link-163', 'NS', 'link-5');">NS</a></tt> <tt class="py-op">+</tt> <tt class="py-string">"dbxref"</tt><tt class="py-op">)</tt> </tt>
<a name="L148"></a><tt class="py-lineno">148</tt> <tt class="py-line"> </tt>
<a name="dbxref_dbname"></a><div id="dbxref_dbname-def"><a name="L149"></a><tt class="py-lineno">149</tt> <a class="py-toggle" href="#" id="dbxref_dbname-toggle" onclick="return toggle('dbxref_dbname');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#dbxref_dbname">dbxref_dbname</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">attrs</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="dbxref_dbname-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="dbxref_dbname-expanded"><a name="L150"></a><tt class="py-lineno">150</tt> <tt class="py-line"> <tt id="link-164" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-164', 'attrs', 'link-9');">attrs</a></tt> <tt class="py-op">=</tt> <tt id="link-165" class="py-name"><a title="Bio.Std._check_attrs" class="py-name" href="#" onclick="return doclink('link-165', '_check_attrs', 'link-87');">_check_attrs</a></tt><tt class="py-op">(</tt><tt id="link-166" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-166', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-string">"style"</tt><tt class="py-op">,</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 id="link-167" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-167', 'd', 'link-14');">d</a></tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt> </tt>
<a name="L152"></a><tt class="py-lineno">152</tt> <tt class="py-line"> <tt id="link-168" class="py-name"><a title="Bio.Std._set_if_given" class="py-name" href="#" onclick="return doclink('link-168', '_set_if_given', 'link-91');">_set_if_given</a></tt><tt class="py-op">(</tt><tt id="link-169" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-169', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-string">"style"</tt><tt class="py-op">,</tt> <tt id="link-170" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-170', 'd', 'link-14');">d</a></tt><tt class="py-op">)</tt> </tt>
<a name="L153"></a><tt class="py-lineno">153</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt id="link-171" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-171', 'Group', 'link-1');">Group</a></tt><tt class="py-op">(</tt><tt id="link-172" class="py-name"><a title="Bio.Std.NS" class="py-name" href="#" onclick="return doclink('link-172', 'NS', 'link-5');">NS</a></tt> <tt class="py-op">+</tt> <tt class="py-string">"dbxref_dbname"</tt><tt class="py-op">,</tt> <tt class="py-name">expr</tt><tt class="py-op">,</tt> <tt id="link-173" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-173', 'd', 'link-14');">d</a></tt><tt class="py-op">)</tt> </tt>
</div><a name="L154"></a><tt class="py-lineno">154</tt> <tt class="py-line"><tt id="link-174" class="py-name"><a title="Bio.Std._settag" class="py-name" href="#" onclick="return doclink('link-174', '_settag', 'link-96');">_settag</a></tt><tt class="py-op">(</tt><tt id="link-175" class="py-name" targets="Function Bio.Std.dbxref_dbname()=Bio.Std-module.html#dbxref_dbname"><a title="Bio.Std.dbxref_dbname" class="py-name" href="#" onclick="return doclink('link-175', 'dbxref_dbname', 'link-175');">dbxref_dbname</a></tt><tt class="py-op">,</tt> <tt id="link-176" class="py-name"><a title="Bio.Std.NS" class="py-name" href="#" onclick="return doclink('link-176', 'NS', 'link-5');">NS</a></tt> <tt class="py-op">+</tt> <tt class="py-string">"dbxref_dbname"</tt><tt class="py-op">)</tt> </tt>
<a name="L155"></a><tt class="py-lineno">155</tt> <tt class="py-line"> </tt>
<a name="dbxref_dbid"></a><div id="dbxref_dbid-def"><a name="L156"></a><tt class="py-lineno">156</tt> <a class="py-toggle" href="#" id="dbxref_dbid-toggle" onclick="return toggle('dbxref_dbid');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#dbxref_dbid">dbxref_dbid</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">attrs</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="dbxref_dbid-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="dbxref_dbid-expanded"><a name="L157"></a><tt class="py-lineno">157</tt> <tt class="py-line"> <tt id="link-177" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-177', 'attrs', 'link-9');">attrs</a></tt> <tt class="py-op">=</tt> <tt id="link-178" class="py-name"><a title="Bio.Std._check_attrs" class="py-name" href="#" onclick="return doclink('link-178', '_check_attrs', 'link-87');">_check_attrs</a></tt><tt class="py-op">(</tt><tt id="link-179" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-179', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-string">"dbname"</tt><tt class="py-op">,</tt> <tt class="py-string">"type"</tt><tt class="py-op">,</tt> <tt class="py-string">"style"</tt><tt class="py-op">,</tt> <tt class="py-string">"negate"</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L158"></a><tt class="py-lineno">158</tt> <tt class="py-line"> <tt id="link-180" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-180', 'd', 'link-14');">d</a></tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt> </tt>
<a name="L159"></a><tt class="py-lineno">159</tt> <tt class="py-line"> <tt id="link-181" class="py-name"><a title="Bio.Std._set_if_given" class="py-name" href="#" onclick="return doclink('link-181', '_set_if_given', 'link-91');">_set_if_given</a></tt><tt class="py-op">(</tt><tt id="link-182" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-182', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-string">"dbname"</tt><tt class="py-op">,</tt> <tt id="link-183" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-183', 'd', 'link-14');">d</a></tt><tt class="py-op">)</tt> </tt>
<a name="L160"></a><tt class="py-lineno">160</tt> <tt class="py-line"> <tt id="link-184" class="py-name"><a title="Bio.Std._set_if_given" class="py-name" href="#" onclick="return doclink('link-184', '_set_if_given', 'link-91');">_set_if_given</a></tt><tt class="py-op">(</tt><tt id="link-185" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-185', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-string">"type"</tt><tt class="py-op">,</tt> <tt id="link-186" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-186', 'd', 'link-14');">d</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-string">"primary"</tt><tt class="py-op">,</tt> <tt class="py-string">"accession"</tt><tt class="py-op">,</tt> <tt class="py-string">"secondary"</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L161"></a><tt class="py-lineno">161</tt> <tt class="py-line"> <tt id="link-187" class="py-name"><a title="Bio.Std._complain_if_given" class="py-name" href="#" onclick="return doclink('link-187', '_complain_if_given', 'link-156');">_complain_if_given</a></tt><tt class="py-op">(</tt><tt id="link-188" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-188', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-string">"style"</tt><tt class="py-op">)</tt> </tt>
<a name="L162"></a><tt class="py-lineno">162</tt> <tt class="py-line"> <tt id="link-189" class="py-name"><a title="Bio.Std._set_if_given" class="py-name" href="#" onclick="return doclink('link-189', '_set_if_given', 'link-91');">_set_if_given</a></tt><tt class="py-op">(</tt><tt id="link-190" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-190', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-string">"negate"</tt><tt class="py-op">,</tt> <tt id="link-191" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-191', 'd', 'link-14');">d</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-number">1</tt><tt class="py-op">)</tt><tt class="py-op">,</tt> <tt class="py-name">str</tt><tt class="py-op">)</tt> </tt>
<a name="L163"></a><tt class="py-lineno">163</tt> <tt class="py-line"> </tt>
<a name="L164"></a><tt class="py-lineno">164</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt id="link-192" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-192', 'Group', 'link-1');">Group</a></tt><tt class="py-op">(</tt><tt id="link-193" class="py-name"><a title="Bio.Std.NS" class="py-name" href="#" onclick="return doclink('link-193', 'NS', 'link-5');">NS</a></tt> <tt class="py-op">+</tt> <tt class="py-string">"dbxref_dbid"</tt><tt class="py-op">,</tt> <tt class="py-name">expr</tt><tt class="py-op">,</tt> <tt id="link-194" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-194', 'd', 'link-14');">d</a></tt><tt class="py-op">)</tt> </tt>
</div><a name="L165"></a><tt class="py-lineno">165</tt> <tt class="py-line"><tt id="link-195" class="py-name"><a title="Bio.Std._settag" class="py-name" href="#" onclick="return doclink('link-195', '_settag', 'link-96');">_settag</a></tt><tt class="py-op">(</tt><tt id="link-196" class="py-name"><a title="Bio.Std.dbxref_dbid" class="py-name" href="#" onclick="return doclink('link-196', 'dbxref_dbid', 'link-154');">dbxref_dbid</a></tt><tt class="py-op">,</tt> <tt id="link-197" class="py-name"><a title="Bio.Std.NS" class="py-name" href="#" onclick="return doclink('link-197', 'NS', 'link-5');">NS</a></tt> <tt class="py-op">+</tt> <tt class="py-string">"dbxref_dbid"</tt><tt class="py-op">)</tt> </tt>
<a name="L166"></a><tt class="py-lineno">166</tt> <tt class="py-line"> </tt>
<a name="dbxref_negate"></a><div id="dbxref_negate-def"><a name="L167"></a><tt class="py-lineno">167</tt> <a class="py-toggle" href="#" id="dbxref_negate-toggle" onclick="return toggle('dbxref_negate');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#dbxref_negate">dbxref_negate</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">attrs</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="dbxref_negate-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="dbxref_negate-expanded"><a name="L168"></a><tt class="py-lineno">168</tt> <tt class="py-line"> <tt id="link-198" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-198', 'attrs', 'link-9');">attrs</a></tt> <tt class="py-op">=</tt> <tt id="link-199" class="py-name"><a title="Bio.Std._check_attrs" class="py-name" href="#" onclick="return doclink('link-199', '_check_attrs', 'link-87');">_check_attrs</a></tt><tt class="py-op">(</tt><tt id="link-200" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-200', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L169"></a><tt class="py-lineno">169</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt id="link-201" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-201', 'Group', 'link-1');">Group</a></tt><tt class="py-op">(</tt><tt id="link-202" class="py-name"><a title="Bio.Std.NS" class="py-name" href="#" onclick="return doclink('link-202', 'NS', 'link-5');">NS</a></tt> <tt class="py-op">+</tt> <tt class="py-string">"dbxref_negate"</tt><tt class="py-op">,</tt> <tt class="py-name">expr</tt><tt class="py-op">)</tt> </tt>
</div><a name="L170"></a><tt class="py-lineno">170</tt> <tt class="py-line"><tt id="link-203" class="py-name"><a title="Bio.Std._settag" class="py-name" href="#" onclick="return doclink('link-203', '_settag', 'link-96');">_settag</a></tt><tt class="py-op">(</tt><tt id="link-204" class="py-name" targets="Function Bio.Std.dbxref_negate()=Bio.Std-module.html#dbxref_negate"><a title="Bio.Std.dbxref_negate" class="py-name" href="#" onclick="return doclink('link-204', 'dbxref_negate', 'link-204');">dbxref_negate</a></tt><tt class="py-op">,</tt> <tt id="link-205" class="py-name"><a title="Bio.Std.NS" class="py-name" href="#" onclick="return doclink('link-205', 'NS', 'link-5');">NS</a></tt> <tt class="py-op">+</tt> <tt class="py-string">"dbxref_negate"</tt><tt class="py-op">)</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-comment">##################### sequences</tt> </tt>
<a name="L173"></a><tt class="py-lineno">173</tt> <tt class="py-line"><tt class="py-comment"></tt> </tt>
<a name="_check_gapchar"></a><div id="_check_gapchar-def"><a name="L174"></a><tt class="py-lineno">174</tt> <a class="py-toggle" href="#" id="_check_gapchar-toggle" onclick="return toggle('_check_gapchar');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#_check_gapchar">_check_gapchar</a><tt class="py-op">(</tt><tt class="py-param">s</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="_check_gapchar-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="_check_gapchar-expanded"><a name="L175"></a><tt class="py-lineno">175</tt> <tt class="py-line"> <tt class="py-keyword">if</tt> <tt class="py-keyword">not</tt> <tt class="py-op">(</tt> <tt class="py-name">ord</tt><tt class="py-op">(</tt><tt class="py-string">" "</tt><tt class="py-op">)</tt> <tt class="py-op"><=</tt> <tt class="py-name">ord</tt><tt class="py-op">(</tt><tt id="link-206" class="py-name"><a title="Martel.test.test_swissprot38.s" class="py-name" href="#" onclick="return doclink('link-206', 's', 'link-42');">s</a></tt><tt class="py-op">)</tt> <tt class="py-op"><=</tt> <tt class="py-number">126</tt> <tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
<a name="L176"></a><tt class="py-lineno">176</tt> <tt class="py-line"> <tt class="py-keyword">raise</tt> <tt class="py-name">TypeError</tt><tt class="py-op">(</tt><tt class="py-string">"%r not allowed as a gap character"</tt> <tt class="py-op">%</tt> <tt class="py-op">(</tt><tt id="link-207" class="py-name"><a title="Martel.test.test_swissprot38.s" class="py-name" href="#" onclick="return doclink('link-207', 's', 'link-42');">s</a></tt><tt class="py-op">,</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L177"></a><tt class="py-lineno">177</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt id="link-208" class="py-name"><a title="Martel.test.test_swissprot38.s" class="py-name" href="#" onclick="return doclink('link-208', 's', 'link-42');">s</a></tt> </tt>
</div><a name="L178"></a><tt class="py-lineno">178</tt> <tt class="py-line"> </tt>
<a name="L179"></a><tt class="py-lineno">179</tt> <tt class="py-line"><tt class="py-comment"># What about three letter codes?</tt> </tt>
<a name="sequence_block"></a><div id="sequence_block-def"><a name="L180"></a><tt class="py-lineno">180</tt> <a class="py-toggle" href="#" id="sequence_block-toggle" onclick="return toggle('sequence_block');">-</a><tt class="py-line"><tt class="py-comment"></tt><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#sequence_block">sequence_block</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">attrs</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="sequence_block-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="sequence_block-expanded"><a name="L181"></a><tt class="py-lineno">181</tt> <tt class="py-line"> <tt id="link-209" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-209', 'attrs', 'link-9');">attrs</a></tt> <tt class="py-op">=</tt> <tt id="link-210" class="py-name"><a title="Bio.Std._check_attrs" class="py-name" href="#" onclick="return doclink('link-210', '_check_attrs', 'link-87');">_check_attrs</a></tt><tt class="py-op">(</tt><tt id="link-211" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-211', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-string">"alphabet"</tt><tt class="py-op">,</tt> <tt class="py-string">"gapchar"</tt><tt class="py-op">,</tt> <tt class="py-string">"remove_spaces"</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L182"></a><tt class="py-lineno">182</tt> <tt class="py-line"> <tt id="link-212" class="py-name"><a title="Bio.Std._must_have" class="py-name" href="#" onclick="return doclink('link-212', '_must_have', 'link-117');">_must_have</a></tt><tt class="py-op">(</tt><tt class="py-name">expr</tt><tt class="py-op">,</tt> <tt id="link-213" class="py-name" targets="Method Bio.AlignAce.Parser.AlignAceConsumer.sequence()=Bio.AlignAce.Parser.AlignAceConsumer-class.html#sequence,Variable Bio.Emboss.primer3_format.sequence=Bio.Emboss.primer3_format-module.html#sequence,Method Bio.FSSP.FSSPAlignDict.sequence()=Bio.FSSP.FSSPAlignDict-class.html#sequence,Method Bio.GenBank._FeatureConsumer.sequence()=Bio.GenBank._FeatureConsumer-class.html#sequence,Method Bio.GenBank._RecordConsumer.sequence()=Bio.GenBank._RecordConsumer-class.html#sequence,Method Bio.IntelliGenetics._RecordConsumer.sequence()=Bio.IntelliGenetics._RecordConsumer-class.html#sequence,Method Bio.Rebase._RecordConsumer.sequence()=Bio.Rebase._RecordConsumer-class.html#sequence,Function Bio.Std.sequence()=Bio.Std-module.html#sequence,Module Bio.builders.SeqRecord.sequence=Bio.builders.SeqRecord.sequence-module.html,Variable Bio.expressions.fasta.sequence=Bio.expressions.fasta-module.html#sequence,Variable Bio.expressions.genbank.sequence=Bio.expressions.genbank-module.html#sequence,Variable Bio.expressions.swissprot.sprot38.sequence=Bio.expressions.swissprot.sprot38-module.html#sequence,Module Bio.formatdefs.sequence=Bio.formatdefs.sequence-module.html,Variable Bio.formatdefs.sequence.sequence=Bio.formatdefs.sequence-module.html#sequence,Variable Martel.test.test_swissprot38.sequence=Martel.test.test_swissprot38-module.html#sequence,Variable Martel.test.testformats.swissprot38.sequence=Martel.test.testformats.swissprot38-module.html#sequence"><a title="Bio.AlignAce.Parser.AlignAceConsumer.sequence
Bio.Emboss.primer3_format.sequence
Bio.FSSP.FSSPAlignDict.sequence
Bio.GenBank._FeatureConsumer.sequence
Bio.GenBank._RecordConsumer.sequence
Bio.IntelliGenetics._RecordConsumer.sequence
Bio.Rebase._RecordConsumer.sequence
Bio.Std.sequence
Bio.builders.SeqRecord.sequence
Bio.expressions.fasta.sequence
Bio.expressions.genbank.sequence
Bio.expressions.swissprot.sprot38.sequence
Bio.formatdefs.sequence
Bio.formatdefs.sequence.sequence
Martel.test.test_swissprot38.sequence
Martel.test.testformats.swissprot38.sequence" class="py-name" href="#" onclick="return doclink('link-213', 'sequence', 'link-213');">sequence</a></tt><tt class="py-op">)</tt> </tt>
<a name="L183"></a><tt class="py-lineno">183</tt> <tt class="py-line"> <tt id="link-214" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-214', 'd', 'link-14');">d</a></tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt> </tt>
<a name="L184"></a><tt class="py-lineno">184</tt> <tt class="py-line"> <tt id="link-215" class="py-name"><a title="Bio.Std._set_if_given" class="py-name" href="#" onclick="return doclink('link-215', '_set_if_given', 'link-91');">_set_if_given</a></tt><tt class="py-op">(</tt><tt id="link-216" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-216', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-string">"alphabet"</tt><tt class="py-op">,</tt> <tt id="link-217" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-217', 'd', 'link-14');">d</a></tt><tt class="py-op">,</tt> </tt>
<a name="L185"></a><tt class="py-lineno">185</tt> <tt class="py-line"> <tt class="py-op">(</tt><tt class="py-string">"iupac-protein"</tt><tt class="py-op">,</tt> <tt class="py-string">"iupac-dna"</tt><tt class="py-op">,</tt> <tt class="py-string">"iupac-rna"</tt><tt class="py-op">,</tt> </tt>
<a name="L186"></a><tt class="py-lineno">186</tt> <tt class="py-line"> <tt class="py-string">"iupac-ambiguous-protein"</tt><tt class="py-op">,</tt> </tt>
<a name="L187"></a><tt class="py-lineno">187</tt> <tt class="py-line"> <tt class="py-string">"iupac-ambiguous-dna"</tt><tt class="py-op">,</tt> </tt>
<a name="L188"></a><tt class="py-lineno">188</tt> <tt class="py-line"> <tt class="py-string">"iupac-ambiguous-rna"</tt><tt class="py-op">,</tt> </tt>
<a name="L189"></a><tt class="py-lineno">189</tt> <tt class="py-line"> <tt class="py-string">"protein"</tt><tt class="py-op">,</tt> <tt class="py-string">"dna"</tt><tt class="py-op">,</tt> <tt class="py-string">"rna"</tt><tt class="py-op">,</tt> <tt class="py-string">"unknown"</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L190"></a><tt class="py-lineno">190</tt> <tt class="py-line"> <tt id="link-218" class="py-name"><a title="Bio.Std._set_if_given" class="py-name" href="#" onclick="return doclink('link-218', '_set_if_given', 'link-91');">_set_if_given</a></tt><tt class="py-op">(</tt><tt id="link-219" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-219', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-string">"gapchar"</tt><tt class="py-op">,</tt> <tt id="link-220" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-220', 'd', 'link-14');">d</a></tt><tt class="py-op">,</tt> <tt class="py-name">convert</tt> <tt class="py-op">=</tt> <tt id="link-221" class="py-name" targets="Function Bio.Std._check_gapchar()=Bio.Std-module.html#_check_gapchar"><a title="Bio.Std._check_gapchar" class="py-name" href="#" onclick="return doclink('link-221', '_check_gapchar', 'link-221');">_check_gapchar</a></tt><tt class="py-op">)</tt> </tt>
<a name="L191"></a><tt class="py-lineno">191</tt> <tt class="py-line"> <tt id="link-222" class="py-name"><a title="Bio.Std._set_if_given" class="py-name" href="#" onclick="return doclink('link-222', '_set_if_given', 'link-91');">_set_if_given</a></tt><tt class="py-op">(</tt><tt id="link-223" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-223', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-string">"remove_spaces"</tt><tt class="py-op">,</tt> <tt id="link-224" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-224', 'd', 'link-14');">d</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-number">1</tt><tt class="py-op">)</tt><tt class="py-op">,</tt> <tt class="py-name">str</tt><tt class="py-op">)</tt> </tt>
<a name="L192"></a><tt class="py-lineno">192</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt id="link-225" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-225', 'Group', 'link-1');">Group</a></tt><tt class="py-op">(</tt><tt id="link-226" class="py-name"><a title="Bio.Std.NS" class="py-name" href="#" onclick="return doclink('link-226', 'NS', 'link-5');">NS</a></tt> <tt class="py-op">+</tt> <tt class="py-string">"sequence_block"</tt><tt class="py-op">,</tt> <tt class="py-name">expr</tt><tt class="py-op">,</tt> <tt id="link-227" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-227', 'd', 'link-14');">d</a></tt><tt class="py-op">)</tt> </tt>
</div><a name="L193"></a><tt class="py-lineno">193</tt> <tt class="py-line"><tt id="link-228" class="py-name"><a title="Bio.Std._settag" class="py-name" href="#" onclick="return doclink('link-228', '_settag', 'link-96');">_settag</a></tt><tt class="py-op">(</tt><tt id="link-229" class="py-name" targets="Variable Bio.CDD.cdd_format.sequence_block=Bio.CDD.cdd_format-module.html#sequence_block,Variable Bio.NBRF.nbrf_format.sequence_block=Bio.NBRF.nbrf_format-module.html#sequence_block,Function Bio.Std.sequence_block()=Bio.Std-module.html#sequence_block"><a title="Bio.CDD.cdd_format.sequence_block
Bio.NBRF.nbrf_format.sequence_block
Bio.Std.sequence_block" class="py-name" href="#" onclick="return doclink('link-229', 'sequence_block', 'link-229');">sequence_block</a></tt><tt class="py-op">,</tt> <tt id="link-230" class="py-name"><a title="Bio.Std.NS" class="py-name" href="#" onclick="return doclink('link-230', 'NS', 'link-5');">NS</a></tt> <tt class="py-op">+</tt> <tt class="py-string">"sequence_block"</tt><tt class="py-op">)</tt> </tt>
<a name="L194"></a><tt class="py-lineno">194</tt> <tt class="py-line"> </tt>
<a name="sequence"></a><div id="sequence-def"><a name="L195"></a><tt class="py-lineno">195</tt> <a class="py-toggle" href="#" id="sequence-toggle" onclick="return toggle('sequence');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#sequence">sequence</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">attrs</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="sequence-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="sequence-expanded"><a name="L196"></a><tt class="py-lineno">196</tt> <tt class="py-line"> <tt id="link-231" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-231', 'attrs', 'link-9');">attrs</a></tt> <tt class="py-op">=</tt> <tt id="link-232" class="py-name"><a title="Bio.Std._check_attrs" class="py-name" href="#" onclick="return doclink('link-232', '_check_attrs', 'link-87');">_check_attrs</a></tt><tt class="py-op">(</tt><tt id="link-233" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-233', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</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-keyword">return</tt> <tt id="link-234" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-234', 'Group', 'link-1');">Group</a></tt><tt class="py-op">(</tt><tt id="link-235" class="py-name"><a title="Bio.Std.NS" class="py-name" href="#" onclick="return doclink('link-235', 'NS', 'link-5');">NS</a></tt> <tt class="py-op">+</tt> <tt class="py-string">"sequence"</tt><tt class="py-op">,</tt> <tt class="py-name">expr</tt><tt class="py-op">)</tt> </tt>
</div><a name="L198"></a><tt class="py-lineno">198</tt> <tt class="py-line"><tt id="link-236" class="py-name"><a title="Bio.Std._settag" class="py-name" href="#" onclick="return doclink('link-236', '_settag', 'link-96');">_settag</a></tt><tt class="py-op">(</tt><tt id="link-237" class="py-name"><a title="Bio.AlignAce.Parser.AlignAceConsumer.sequence
Bio.Emboss.primer3_format.sequence
Bio.FSSP.FSSPAlignDict.sequence
Bio.GenBank._FeatureConsumer.sequence
Bio.GenBank._RecordConsumer.sequence
Bio.IntelliGenetics._RecordConsumer.sequence
Bio.Rebase._RecordConsumer.sequence
Bio.Std.sequence
Bio.builders.SeqRecord.sequence
Bio.expressions.fasta.sequence
Bio.expressions.genbank.sequence
Bio.expressions.swissprot.sprot38.sequence
Bio.formatdefs.sequence
Bio.formatdefs.sequence.sequence
Martel.test.test_swissprot38.sequence
Martel.test.testformats.swissprot38.sequence" class="py-name" href="#" onclick="return doclink('link-237', 'sequence', 'link-213');">sequence</a></tt><tt class="py-op">,</tt> <tt id="link-238" class="py-name"><a title="Bio.Std.NS" class="py-name" href="#" onclick="return doclink('link-238', 'NS', 'link-5');">NS</a></tt> <tt class="py-op">+</tt> <tt class="py-string">"sequence"</tt><tt class="py-op">)</tt> </tt>
<a name="L199"></a><tt class="py-lineno">199</tt> <tt class="py-line"> </tt>
<a name="alphabet"></a><div id="alphabet-def"><a name="L200"></a><tt class="py-lineno">200</tt> <a class="py-toggle" href="#" id="alphabet-toggle" onclick="return toggle('alphabet');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#alphabet">alphabet</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">attrs</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="alphabet-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="alphabet-expanded"><a name="L201"></a><tt class="py-lineno">201</tt> <tt class="py-line"> <tt id="link-239" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-239', 'attrs', 'link-9');">attrs</a></tt> <tt class="py-op">=</tt> <tt id="link-240" class="py-name"><a title="Bio.Std._check_attrs" class="py-name" href="#" onclick="return doclink('link-240', '_check_attrs', 'link-87');">_check_attrs</a></tt><tt class="py-op">(</tt><tt id="link-241" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-241', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-string">"alphabet"</tt><tt class="py-op">,</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L202"></a><tt class="py-lineno">202</tt> <tt class="py-line"> <tt id="link-242" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-242', 'd', 'link-14');">d</a></tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt> </tt>
<a name="L203"></a><tt class="py-lineno">203</tt> <tt class="py-line"> <tt id="link-243" class="py-name"><a title="Bio.Std._set_if_given" class="py-name" href="#" onclick="return doclink('link-243', '_set_if_given', 'link-91');">_set_if_given</a></tt><tt class="py-op">(</tt><tt id="link-244" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-244', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-string">"alphabet"</tt><tt class="py-op">,</tt> <tt id="link-245" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-245', 'd', 'link-14');">d</a></tt><tt class="py-op">,</tt> </tt>
<a name="L204"></a><tt class="py-lineno">204</tt> <tt class="py-line"> <tt class="py-op">(</tt><tt class="py-string">"iupac-protein"</tt><tt class="py-op">,</tt> <tt class="py-string">"iupac-dna"</tt><tt class="py-op">,</tt> <tt class="py-string">"iupac-rna"</tt><tt class="py-op">,</tt> </tt>
<a name="L205"></a><tt class="py-lineno">205</tt> <tt class="py-line"> <tt class="py-string">"iupac-ambiguous-protein"</tt><tt class="py-op">,</tt> </tt>
<a name="L206"></a><tt class="py-lineno">206</tt> <tt class="py-line"> <tt class="py-string">"iupac-ambiguous-dna"</tt><tt class="py-op">,</tt> </tt>
<a name="L207"></a><tt class="py-lineno">207</tt> <tt class="py-line"> <tt class="py-string">"iupac-ambiguous-rna"</tt><tt class="py-op">,</tt> </tt>
<a name="L208"></a><tt class="py-lineno">208</tt> <tt class="py-line"> <tt class="py-string">"protein"</tt><tt class="py-op">,</tt> <tt class="py-string">"dna"</tt><tt class="py-op">,</tt> <tt class="py-string">"rna"</tt><tt class="py-op">,</tt> <tt class="py-string">"nucleotide"</tt><tt class="py-op">,</tt> <tt class="py-string">"unknown"</tt><tt class="py-op">)</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">return</tt> <tt id="link-246" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-246', 'Group', 'link-1');">Group</a></tt><tt class="py-op">(</tt><tt id="link-247" class="py-name"><a title="Bio.Std.NS" class="py-name" href="#" onclick="return doclink('link-247', 'NS', 'link-5');">NS</a></tt> <tt class="py-op">+</tt> <tt class="py-string">"alphabet"</tt><tt class="py-op">,</tt> <tt class="py-name">expr</tt><tt class="py-op">,</tt> <tt id="link-248" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-248', 'd', 'link-14');">d</a></tt><tt class="py-op">)</tt> </tt>
</div><a name="L210"></a><tt class="py-lineno">210</tt> <tt class="py-line"><tt id="link-249" class="py-name"><a title="Bio.Std._settag" class="py-name" href="#" onclick="return doclink('link-249', '_settag', 'link-96');">_settag</a></tt><tt class="py-op">(</tt><tt id="link-250" class="py-name" targets="Variable Bio.Prosite.Pattern.Prosite.alphabet=Bio.Prosite.Pattern.Prosite-class.html#alphabet,Function Bio.Std.alphabet()=Bio.Std-module.html#alphabet"><a title="Bio.Prosite.Pattern.Prosite.alphabet
Bio.Std.alphabet" class="py-name" href="#" onclick="return doclink('link-250', 'alphabet', 'link-250');">alphabet</a></tt><tt class="py-op">,</tt> <tt id="link-251" class="py-name"><a title="Bio.Std.NS" class="py-name" href="#" onclick="return doclink('link-251', 'NS', 'link-5');">NS</a></tt> <tt class="py-op">+</tt> <tt class="py-string">"alphabet"</tt><tt class="py-op">)</tt> </tt>
<a name="L211"></a><tt class="py-lineno">211</tt> <tt class="py-line"> </tt>
<a name="L212"></a><tt class="py-lineno">212</tt> <tt class="py-line"> </tt>
<a name="L213"></a><tt class="py-lineno">213</tt> <tt class="py-line"> </tt>
<a name="L214"></a><tt class="py-lineno">214</tt> <tt class="py-line"><tt class="py-comment">############################## features</tt> </tt>
<a name="L215"></a><tt class="py-lineno">215</tt> <tt class="py-line"><tt class="py-comment"></tt> </tt>
<a name="L216"></a><tt class="py-lineno">216</tt> <tt class="py-line"><tt class="py-comment"># In PIR</tt> </tt>
<a name="L217"></a><tt class="py-lineno">217</tt> <tt class="py-line"><tt class="py-comment"></tt> </tt>
<a name="L218"></a><tt class="py-lineno">218</tt> <tt class="py-line"><tt class="py-comment"># FEATURE</tt> </tt>
<a name="L219"></a><tt class="py-lineno">219</tt> <tt class="py-line"><tt class="py-comment"></tt><tt class="py-comment"># 1-25 #domain signal sequence #status predicted #label SIG\</tt> </tt>
<a name="L220"></a><tt class="py-lineno">220</tt> <tt class="py-line"><tt class="py-comment"></tt><tt class="py-comment"># 26-737 #product procollagen-lysine 5-dioxygenase 2 #status</tt> </tt>
<a name="L221"></a><tt class="py-lineno">221</tt> <tt class="py-line"><tt class="py-comment"></tt><tt class="py-comment"># predicted #label MAT\</tt> </tt>
<a name="L222"></a><tt class="py-lineno">222</tt> <tt class="py-line"><tt class="py-comment"></tt><tt class="py-comment"># 63,209,297,365,522,</tt> </tt>
<a name="L223"></a><tt class="py-lineno">223</tt> <tt class="py-line"><tt class="py-comment"></tt><tt class="py-comment"># 725 #binding_site carbohydrate (Asn) (covalent) #status</tt> </tt>
<a name="L224"></a><tt class="py-lineno">224</tt> <tt class="py-line"><tt class="py-comment"></tt><tt class="py-comment"># predicted</tt> </tt>
<a name="L225"></a><tt class="py-lineno">225</tt> <tt class="py-line"><tt class="py-comment"></tt> </tt>
<a name="L226"></a><tt class="py-lineno">226</tt> <tt class="py-line"><tt class="py-comment"># The whole thing is a 'feature_block'</tt> </tt>
<a name="L227"></a><tt class="py-lineno">227</tt> <tt class="py-line"><tt class="py-comment"></tt> </tt>
<a name="L228"></a><tt class="py-lineno">228</tt> <tt class="py-line"><tt class="py-comment"># One 'feature' is</tt> </tt>
<a name="L229"></a><tt class="py-lineno">229</tt> <tt class="py-line"><tt class="py-comment"></tt><tt class="py-comment"># 26-737 #product procollagen-lysine 5-dioxygenase 2 #status</tt> </tt>
<a name="L230"></a><tt class="py-lineno">230</tt> <tt class="py-line"><tt class="py-comment"></tt><tt class="py-comment"># predicted #label MAT\</tt> </tt>
<a name="L231"></a><tt class="py-lineno">231</tt> <tt class="py-line"><tt class="py-comment"></tt> </tt>
<a name="L232"></a><tt class="py-lineno">232</tt> <tt class="py-line"><tt class="py-comment"># One 'feature_name' is "binding_site".</tt> </tt>
<a name="L233"></a><tt class="py-lineno">233</tt> <tt class="py-line"><tt class="py-comment"></tt> </tt>
<a name="L234"></a><tt class="py-lineno">234</tt> <tt class="py-line"><tt class="py-comment"># An example of the feature_location_block and feature_block, which I</tt> </tt>
<a name="L235"></a><tt class="py-lineno">235</tt> <tt class="py-line"><tt class="py-comment"></tt><tt class="py-comment"># will abbreviate as 'flb' and 'fl', is:</tt> </tt>
<a name="L236"></a><tt class="py-lineno">236</tt> <tt class="py-line"><tt class="py-comment"></tt><tt class="py-comment"># <flb> <fl>63,209,297,365,522,</fl></tt> </tt>
<a name="L237"></a><tt class="py-lineno">237</tt> <tt class="py-line"><tt class="py-comment"></tt><tt class="py-comment"># <fl>725</fl> #binding_site carbohydrate ...</tt> </tt>
<a name="L238"></a><tt class="py-lineno">238</tt> <tt class="py-line"><tt class="py-comment"></tt> </tt>
<a name="L239"></a><tt class="py-lineno">239</tt> <tt class="py-line"><tt class="py-comment"># PIR doesn't have a 'feature_description'</tt> </tt>
<a name="L240"></a><tt class="py-lineno">240</tt> <tt class="py-line"><tt class="py-comment"></tt> </tt>
<a name="L241"></a><tt class="py-lineno">241</tt> <tt class="py-line"><tt class="py-comment"># Let:</tt> </tt>
<a name="L242"></a><tt class="py-lineno">242</tt> <tt class="py-line"><tt class="py-comment"></tt><tt class="py-comment"># fq = feature_qualifier</tt> </tt>
<a name="L243"></a><tt class="py-lineno">243</tt> <tt class="py-line"><tt class="py-comment"></tt><tt class="py-comment"># fqb = feature_qualifier</tt> </tt>
<a name="L244"></a><tt class="py-lineno">244</tt> <tt class="py-line"><tt class="py-comment"></tt><tt class="py-comment"># fqn = feature_qualifier_name</tt> </tt>
<a name="L245"></a><tt class="py-lineno">245</tt> <tt class="py-line"><tt class="py-comment"></tt><tt class="py-comment"># fqd = feature_qualifier_description</tt> </tt>
<a name="L246"></a><tt class="py-lineno">246</tt> <tt class="py-line"><tt class="py-comment"></tt><tt class="py-comment"># then the text</tt> </tt>
<a name="L247"></a><tt class="py-lineno">247</tt> <tt class="py-line"><tt class="py-comment"></tt><tt class="py-comment"># </tt> </tt>
<a name="L248"></a><tt class="py-lineno">248</tt> <tt class="py-line"><tt class="py-comment"></tt><tt class="py-comment"># 26-737 #product procollagen-lysine 5-dioxygenase 2 #status</tt> </tt>
<a name="L249"></a><tt class="py-lineno">249</tt> <tt class="py-line"><tt class="py-comment"></tt><tt class="py-comment"># predicted #label MAT\</tt> </tt>
<a name="L250"></a><tt class="py-lineno">250</tt> <tt class="py-line"><tt class="py-comment"></tt><tt class="py-comment"># </tt> </tt>
<a name="L251"></a><tt class="py-lineno">251</tt> <tt class="py-line"><tt class="py-comment"></tt><tt class="py-comment"># can be represented as (the rather tedious)</tt> </tt>
<a name="L252"></a><tt class="py-lineno">252</tt> <tt class="py-line"><tt class="py-comment"></tt><tt class="py-comment"># </tt> </tt>
<a name="L253"></a><tt class="py-lineno">253</tt> <tt class="py-line"><tt class="py-comment"></tt><tt class="py-comment"># 26-737 <fqb><fq>#<fqn>product</fqn> <fqd>procollagen-\</tt> </tt>
<a name="L254"></a><tt class="py-lineno">254</tt> <tt class="py-line"><tt class="py-comment"></tt><tt class="py-comment"># lysine 5-dioxygenase 2</fqd></fq> #<fq><fqn>status</fqn></tt> </tt>
<a name="L255"></a><tt class="py-lineno">255</tt> <tt class="py-line"><tt class="py-comment"></tt><tt class="py-comment"># <fqd>predicted</fqd> #<fq><fqn>label\</tt> </tt>
<a name="L256"></a><tt class="py-lineno">256</tt> <tt class="py-line"><tt class="py-comment"></tt><tt class="py-comment"># </fqn> <fqd>MAT</fqd></fq>\</fqb></tt> </tt>
<a name="L257"></a><tt class="py-lineno">257</tt> <tt class="py-line"><tt class="py-comment"></tt><tt class="py-comment">#</tt> </tt>
<a name="L258"></a><tt class="py-lineno">258</tt> <tt class="py-line"><tt class="py-comment"></tt> </tt>
<a name="L259"></a><tt class="py-lineno">259</tt> <tt class="py-line"><tt class="py-comment"># 'style' determines the namespace for the feature name</tt> </tt>
<a name="feature_block"></a><div id="feature_block-def"><a name="L260"></a><tt class="py-lineno">260</tt> <a class="py-toggle" href="#" id="feature_block-toggle" onclick="return toggle('feature_block');">-</a><tt class="py-line"><tt class="py-comment"></tt><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#feature_block">feature_block</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">attrs</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="feature_block-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="feature_block-expanded"><a name="L261"></a><tt class="py-lineno">261</tt> <tt class="py-line"> <tt id="link-252" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-252', 'attrs', 'link-9');">attrs</a></tt> <tt class="py-op">=</tt> <tt id="link-253" class="py-name"><a title="Bio.Std._check_attrs" class="py-name" href="#" onclick="return doclink('link-253', '_check_attrs', 'link-87');">_check_attrs</a></tt><tt class="py-op">(</tt><tt id="link-254" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-254', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-string">"style"</tt><tt class="py-op">,</tt> <tt class="py-string">"location-style"</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L262"></a><tt class="py-lineno">262</tt> <tt class="py-line"> <tt id="link-255" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-255', 'd', 'link-14');">d</a></tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt> </tt>
<a name="L263"></a><tt class="py-lineno">263</tt> <tt class="py-line"> <tt id="link-256" class="py-name"><a title="Bio.Std._set_if_given" class="py-name" href="#" onclick="return doclink('link-256', '_set_if_given', 'link-91');">_set_if_given</a></tt><tt class="py-op">(</tt><tt id="link-257" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-257', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-string">"style"</tt><tt class="py-op">,</tt> <tt id="link-258" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-258', 'd', 'link-14');">d</a></tt><tt class="py-op">)</tt> </tt>
<a name="L264"></a><tt class="py-lineno">264</tt> <tt class="py-line"> <tt id="link-259" class="py-name"><a title="Bio.Std._set_if_given" class="py-name" href="#" onclick="return doclink('link-259', '_set_if_given', 'link-91');">_set_if_given</a></tt><tt class="py-op">(</tt><tt id="link-260" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-260', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-string">"location-style"</tt><tt class="py-op">,</tt> <tt id="link-261" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-261', 'd', 'link-14');">d</a></tt><tt class="py-op">)</tt> </tt>
<a name="L265"></a><tt class="py-lineno">265</tt> <tt class="py-line"> <tt id="link-262" class="py-name"><a title="Bio.Std._must_have" class="py-name" href="#" onclick="return doclink('link-262', '_must_have', 'link-117');">_must_have</a></tt><tt class="py-op">(</tt><tt class="py-name">expr</tt><tt class="py-op">,</tt> <tt id="link-263" class="py-name" targets="Function Bio.Std.feature()=Bio.Std-module.html#feature,Variable Bio.expressions.embl.embl65.feature=Bio.expressions.embl.embl65-module.html#feature,Variable Bio.expressions.genbank.feature=Bio.expressions.genbank-module.html#feature"><a title="Bio.Std.feature
Bio.expressions.embl.embl65.feature
Bio.expressions.genbank.feature" class="py-name" href="#" onclick="return doclink('link-263', 'feature', 'link-263');">feature</a></tt><tt class="py-op">)</tt> </tt>
<a name="L266"></a><tt class="py-lineno">266</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt id="link-264" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-264', 'Group', 'link-1');">Group</a></tt><tt class="py-op">(</tt><tt id="link-265" class="py-name"><a title="Bio.Std.NS" class="py-name" href="#" onclick="return doclink('link-265', 'NS', 'link-5');">NS</a></tt> <tt class="py-op">+</tt> <tt class="py-string">"feature_block"</tt><tt class="py-op">,</tt> <tt class="py-name">expr</tt><tt class="py-op">,</tt> <tt id="link-266" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-266', 'd', 'link-14');">d</a></tt><tt class="py-op">)</tt> </tt>
</div><a name="L267"></a><tt class="py-lineno">267</tt> <tt class="py-line"><tt id="link-267" class="py-name"><a title="Bio.Std._settag" class="py-name" href="#" onclick="return doclink('link-267', '_settag', 'link-96');">_settag</a></tt><tt class="py-op">(</tt><tt id="link-268" class="py-name" targets="Function Bio.Std.feature_block()=Bio.Std-module.html#feature_block,Variable Bio.expressions.genbank.feature_block=Bio.expressions.genbank-module.html#feature_block,Variable Bio.expressions.swissprot.sprot38.feature_block=Bio.expressions.swissprot.sprot38-module.html#feature_block,Variable Martel.test.test_swissprot38.feature_block=Martel.test.test_swissprot38-module.html#feature_block,Variable Martel.test.testformats.swissprot38.feature_block=Martel.test.testformats.swissprot38-module.html#feature_block"><a title="Bio.Std.feature_block
Bio.expressions.genbank.feature_block
Bio.expressions.swissprot.sprot38.feature_block
Martel.test.test_swissprot38.feature_block
Martel.test.testformats.swissprot38.feature_block" class="py-name" href="#" onclick="return doclink('link-268', 'feature_block', 'link-268');">feature_block</a></tt><tt class="py-op">,</tt> <tt id="link-269" class="py-name"><a title="Bio.Std.NS" class="py-name" href="#" onclick="return doclink('link-269', 'NS', 'link-5');">NS</a></tt> <tt class="py-op">+</tt> <tt class="py-string">"feature_block"</tt><tt class="py-op">)</tt> </tt>
<a name="L268"></a><tt class="py-lineno">268</tt> <tt class="py-line"> </tt>
<a name="feature"></a><div id="feature-def"><a name="L269"></a><tt class="py-lineno">269</tt> <a class="py-toggle" href="#" id="feature-toggle" onclick="return toggle('feature');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#feature">feature</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">attrs</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="feature-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="feature-expanded"><a name="L270"></a><tt class="py-lineno">270</tt> <tt class="py-line"> <tt id="link-270" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-270', 'attrs', 'link-9');">attrs</a></tt> <tt class="py-op">=</tt> <tt id="link-271" class="py-name"><a title="Bio.Std._check_attrs" class="py-name" href="#" onclick="return doclink('link-271', '_check_attrs', 'link-87');">_check_attrs</a></tt><tt class="py-op">(</tt><tt id="link-272" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-272', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-string">"location-style"</tt><tt class="py-op">,</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L271"></a><tt class="py-lineno">271</tt> <tt class="py-line"> <tt id="link-273" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-273', 'd', 'link-14');">d</a></tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt> </tt>
<a name="L272"></a><tt class="py-lineno">272</tt> <tt class="py-line"> <tt id="link-274" class="py-name"><a title="Bio.Std._set_if_given" class="py-name" href="#" onclick="return doclink('link-274', '_set_if_given', 'link-91');">_set_if_given</a></tt><tt class="py-op">(</tt><tt id="link-275" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-275', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-string">"location-style"</tt><tt class="py-op">,</tt> <tt id="link-276" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-276', 'd', 'link-14');">d</a></tt><tt class="py-op">)</tt> </tt>
<a name="L273"></a><tt class="py-lineno">273</tt> <tt class="py-line"> <tt id="link-277" class="py-name"><a title="Bio.Std._must_have" class="py-name" href="#" onclick="return doclink('link-277', '_must_have', 'link-117');">_must_have</a></tt><tt class="py-op">(</tt><tt class="py-name">expr</tt><tt class="py-op">,</tt> <tt id="link-278" class="py-name" targets="Function Bio.Std.feature_name()=Bio.Std-module.html#feature_name"><a title="Bio.Std.feature_name" class="py-name" href="#" onclick="return doclink('link-278', 'feature_name', 'link-278');">feature_name</a></tt><tt class="py-op">)</tt> </tt>
<a name="L274"></a><tt class="py-lineno">274</tt> <tt class="py-line"> <tt id="link-279" class="py-name" targets="Function Bio.Std._must_have_set()=Bio.Std-module.html#_must_have_set"><a title="Bio.Std._must_have_set" class="py-name" href="#" onclick="return doclink('link-279', '_must_have_set', 'link-279');">_must_have_set</a></tt><tt class="py-op">(</tt><tt class="py-name">expr</tt><tt class="py-op">,</tt> <tt class="py-op">[</tt><tt class="py-op">[</tt><tt id="link-280" class="py-name" targets="Function Bio.Std.feature_location()=Bio.Std-module.html#feature_location"><a title="Bio.Std.feature_location" class="py-name" href="#" onclick="return doclink('link-280', 'feature_location', 'link-280');">feature_location</a></tt><tt class="py-op">]</tt><tt class="py-op">,</tt> </tt>
<a name="L275"></a><tt class="py-lineno">275</tt> <tt class="py-line"> <tt class="py-op">[</tt><tt id="link-281" class="py-name" targets="Function Bio.Std.feature_location_start()=Bio.Std-module.html#feature_location_start"><a title="Bio.Std.feature_location_start" class="py-name" href="#" onclick="return doclink('link-281', 'feature_location_start', 'link-281');">feature_location_start</a></tt><tt class="py-op">,</tt> <tt id="link-282" class="py-name" targets="Function Bio.Std.feature_location_end()=Bio.Std-module.html#feature_location_end"><a title="Bio.Std.feature_location_end" class="py-name" href="#" onclick="return doclink('link-282', 'feature_location_end', 'link-282');">feature_location_end</a></tt><tt class="py-op">]</tt><tt class="py-op">]</tt><tt class="py-op">)</tt> </tt>
<a name="L276"></a><tt class="py-lineno">276</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt id="link-283" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-283', 'Group', 'link-1');">Group</a></tt><tt class="py-op">(</tt><tt id="link-284" class="py-name"><a title="Bio.Std.NS" class="py-name" href="#" onclick="return doclink('link-284', 'NS', 'link-5');">NS</a></tt> <tt class="py-op">+</tt> <tt class="py-string">"feature"</tt><tt class="py-op">,</tt> <tt class="py-name">expr</tt><tt class="py-op">,</tt> <tt id="link-285" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-285', 'd', 'link-14');">d</a></tt><tt class="py-op">)</tt> </tt>
</div><a name="L277"></a><tt class="py-lineno">277</tt> <tt class="py-line"><tt id="link-286" class="py-name"><a title="Bio.Std._settag" class="py-name" href="#" onclick="return doclink('link-286', '_settag', 'link-96');">_settag</a></tt><tt class="py-op">(</tt><tt id="link-287" class="py-name"><a title="Bio.Std.feature
Bio.expressions.embl.embl65.feature
Bio.expressions.genbank.feature" class="py-name" href="#" onclick="return doclink('link-287', 'feature', 'link-263');">feature</a></tt><tt class="py-op">,</tt> <tt id="link-288" class="py-name"><a title="Bio.Std.NS" class="py-name" href="#" onclick="return doclink('link-288', 'NS', 'link-5');">NS</a></tt> <tt class="py-op">+</tt> <tt class="py-string">"feature"</tt><tt class="py-op">)</tt> </tt>
<a name="L278"></a><tt class="py-lineno">278</tt> <tt class="py-line"> </tt>
<a name="feature_name"></a><div id="feature_name-def"><a name="L279"></a><tt class="py-lineno">279</tt> <a class="py-toggle" href="#" id="feature_name-toggle" onclick="return toggle('feature_name');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#feature_name">feature_name</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">attrs</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="feature_name-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="feature_name-expanded"><a name="L280"></a><tt class="py-lineno">280</tt> <tt class="py-line"> <tt id="link-289" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-289', 'attrs', 'link-9');">attrs</a></tt> <tt class="py-op">=</tt> <tt id="link-290" class="py-name"><a title="Bio.Std._check_attrs" class="py-name" href="#" onclick="return doclink('link-290', '_check_attrs', 'link-87');">_check_attrs</a></tt><tt class="py-op">(</tt><tt id="link-291" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-291', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L281"></a><tt class="py-lineno">281</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt id="link-292" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-292', 'Group', 'link-1');">Group</a></tt><tt class="py-op">(</tt><tt id="link-293" class="py-name"><a title="Bio.Std.NS" class="py-name" href="#" onclick="return doclink('link-293', 'NS', 'link-5');">NS</a></tt> <tt class="py-op">+</tt> <tt class="py-string">"feature_name"</tt><tt class="py-op">,</tt> <tt class="py-name">expr</tt><tt class="py-op">)</tt> </tt>
</div><a name="L282"></a><tt class="py-lineno">282</tt> <tt class="py-line"><tt id="link-294" class="py-name"><a title="Bio.Std._settag" class="py-name" href="#" onclick="return doclink('link-294', '_settag', 'link-96');">_settag</a></tt><tt class="py-op">(</tt><tt id="link-295" class="py-name"><a title="Bio.Std.feature_name" class="py-name" href="#" onclick="return doclink('link-295', 'feature_name', 'link-278');">feature_name</a></tt><tt class="py-op">,</tt> <tt id="link-296" class="py-name"><a title="Bio.Std.NS" class="py-name" href="#" onclick="return doclink('link-296', 'NS', 'link-5');">NS</a></tt> <tt class="py-op">+</tt> <tt class="py-string">"feature_name"</tt><tt class="py-op">)</tt> </tt>
<a name="L283"></a><tt class="py-lineno">283</tt> <tt class="py-line"> </tt>
<a name="feature_location"></a><div id="feature_location-def"><a name="L284"></a><tt class="py-lineno">284</tt> <a class="py-toggle" href="#" id="feature_location-toggle" onclick="return toggle('feature_location');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#feature_location">feature_location</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">attrs</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="feature_location-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="feature_location-expanded"><a name="L285"></a><tt class="py-lineno">285</tt> <tt class="py-line"> <tt id="link-297" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-297', 'attrs', 'link-9');">attrs</a></tt> <tt class="py-op">=</tt> <tt id="link-298" class="py-name"><a title="Bio.Std._check_attrs" class="py-name" href="#" onclick="return doclink('link-298', '_check_attrs', 'link-87');">_check_attrs</a></tt><tt class="py-op">(</tt><tt id="link-299" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-299', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L286"></a><tt class="py-lineno">286</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt id="link-300" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-300', 'Group', 'link-1');">Group</a></tt><tt class="py-op">(</tt><tt id="link-301" class="py-name"><a title="Bio.Std.NS" class="py-name" href="#" onclick="return doclink('link-301', 'NS', 'link-5');">NS</a></tt> <tt class="py-op">+</tt> <tt class="py-string">"feature_location"</tt><tt class="py-op">,</tt> <tt class="py-name">expr</tt><tt class="py-op">)</tt> </tt>
</div><a name="L287"></a><tt class="py-lineno">287</tt> <tt class="py-line"><tt id="link-302" class="py-name"><a title="Bio.Std._settag" class="py-name" href="#" onclick="return doclink('link-302', '_settag', 'link-96');">_settag</a></tt><tt class="py-op">(</tt><tt id="link-303" class="py-name"><a title="Bio.Std.feature_location" class="py-name" href="#" onclick="return doclink('link-303', 'feature_location', 'link-280');">feature_location</a></tt><tt class="py-op">,</tt> <tt id="link-304" class="py-name"><a title="Bio.Std.NS" class="py-name" href="#" onclick="return doclink('link-304', 'NS', 'link-5');">NS</a></tt> <tt class="py-op">+</tt> <tt class="py-string">"feature_location"</tt><tt class="py-op">)</tt> </tt>
<a name="L288"></a><tt class="py-lineno">288</tt> <tt class="py-line"> </tt>
<a name="feature_location_start"></a><div id="feature_location_start-def"><a name="L289"></a><tt class="py-lineno">289</tt> <a class="py-toggle" href="#" id="feature_location_start-toggle" onclick="return toggle('feature_location_start');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#feature_location_start">feature_location_start</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">attrs</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="feature_location_start-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="feature_location_start-expanded"><a name="L290"></a><tt class="py-lineno">290</tt> <tt class="py-line"> <tt id="link-305" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-305', 'attrs', 'link-9');">attrs</a></tt> <tt class="py-op">=</tt> <tt id="link-306" class="py-name"><a title="Bio.Std._check_attrs" class="py-name" href="#" onclick="return doclink('link-306', '_check_attrs', 'link-87');">_check_attrs</a></tt><tt class="py-op">(</tt><tt id="link-307" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-307', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L291"></a><tt class="py-lineno">291</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt id="link-308" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-308', 'Group', 'link-1');">Group</a></tt><tt class="py-op">(</tt><tt id="link-309" class="py-name"><a title="Bio.Std.NS" class="py-name" href="#" onclick="return doclink('link-309', 'NS', 'link-5');">NS</a></tt> <tt class="py-op">+</tt> <tt class="py-string">"feature_location_start"</tt><tt class="py-op">,</tt> <tt class="py-name">expr</tt><tt class="py-op">)</tt> </tt>
</div><a name="L292"></a><tt class="py-lineno">292</tt> <tt class="py-line"><tt id="link-310" class="py-name"><a title="Bio.Std._settag" class="py-name" href="#" onclick="return doclink('link-310', '_settag', 'link-96');">_settag</a></tt><tt class="py-op">(</tt><tt id="link-311" class="py-name"><a title="Bio.Std.feature_location_start" class="py-name" href="#" onclick="return doclink('link-311', 'feature_location_start', 'link-281');">feature_location_start</a></tt><tt class="py-op">,</tt> <tt id="link-312" class="py-name"><a title="Bio.Std.NS" class="py-name" href="#" onclick="return doclink('link-312', 'NS', 'link-5');">NS</a></tt> <tt class="py-op">+</tt> <tt class="py-string">"feature_location_start"</tt><tt class="py-op">)</tt> </tt>
<a name="L293"></a><tt class="py-lineno">293</tt> <tt class="py-line"> </tt>
<a name="feature_location_end"></a><div id="feature_location_end-def"><a name="L294"></a><tt class="py-lineno">294</tt> <a class="py-toggle" href="#" id="feature_location_end-toggle" onclick="return toggle('feature_location_end');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#feature_location_end">feature_location_end</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">attrs</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="feature_location_end-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="feature_location_end-expanded"><a name="L295"></a><tt class="py-lineno">295</tt> <tt class="py-line"> <tt id="link-313" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-313', 'attrs', 'link-9');">attrs</a></tt> <tt class="py-op">=</tt> <tt id="link-314" class="py-name"><a title="Bio.Std._check_attrs" class="py-name" href="#" onclick="return doclink('link-314', '_check_attrs', 'link-87');">_check_attrs</a></tt><tt class="py-op">(</tt><tt id="link-315" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-315', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L296"></a><tt class="py-lineno">296</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt id="link-316" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-316', 'Group', 'link-1');">Group</a></tt><tt class="py-op">(</tt><tt id="link-317" class="py-name"><a title="Bio.Std.NS" class="py-name" href="#" onclick="return doclink('link-317', 'NS', 'link-5');">NS</a></tt> <tt class="py-op">+</tt> <tt class="py-string">"feature_location_end"</tt><tt class="py-op">,</tt> <tt class="py-name">expr</tt><tt class="py-op">)</tt> </tt>
</div><a name="L297"></a><tt class="py-lineno">297</tt> <tt class="py-line"><tt id="link-318" class="py-name"><a title="Bio.Std._settag" class="py-name" href="#" onclick="return doclink('link-318', '_settag', 'link-96');">_settag</a></tt><tt class="py-op">(</tt><tt id="link-319" class="py-name"><a title="Bio.Std.feature_location_end" class="py-name" href="#" onclick="return doclink('link-319', 'feature_location_end', 'link-282');">feature_location_end</a></tt><tt class="py-op">,</tt> <tt id="link-320" class="py-name"><a title="Bio.Std.NS" class="py-name" href="#" onclick="return doclink('link-320', 'NS', 'link-5');">NS</a></tt> <tt class="py-op">+</tt> <tt class="py-string">"feature_location_end"</tt><tt class="py-op">)</tt> </tt>
<a name="L298"></a><tt class="py-lineno">298</tt> <tt class="py-line"> </tt>
<a name="feature_description"></a><div id="feature_description-def"><a name="L299"></a><tt class="py-lineno">299</tt> <a class="py-toggle" href="#" id="feature_description-toggle" onclick="return toggle('feature_description');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#feature_description">feature_description</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">attrs</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="feature_description-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="feature_description-expanded"><a name="L300"></a><tt class="py-lineno">300</tt> <tt class="py-line"> <tt id="link-321" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-321', 'attrs', 'link-9');">attrs</a></tt> <tt class="py-op">=</tt> <tt id="link-322" class="py-name"><a title="Bio.Std._check_attrs" class="py-name" href="#" onclick="return doclink('link-322', '_check_attrs', 'link-87');">_check_attrs</a></tt><tt class="py-op">(</tt><tt id="link-323" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-323', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L301"></a><tt class="py-lineno">301</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt id="link-324" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-324', 'Group', 'link-1');">Group</a></tt><tt class="py-op">(</tt><tt id="link-325" class="py-name"><a title="Bio.Std.NS" class="py-name" href="#" onclick="return doclink('link-325', 'NS', 'link-5');">NS</a></tt> <tt class="py-op">+</tt> <tt class="py-string">"feature_description"</tt><tt class="py-op">,</tt> <tt class="py-name">expr</tt><tt class="py-op">)</tt> </tt>
</div><a name="L302"></a><tt class="py-lineno">302</tt> <tt class="py-line"><tt id="link-326" class="py-name"><a title="Bio.Std._settag" class="py-name" href="#" onclick="return doclink('link-326', '_settag', 'link-96');">_settag</a></tt><tt class="py-op">(</tt><tt id="link-327" class="py-name" targets="Function Bio.Std.feature_description()=Bio.Std-module.html#feature_description"><a title="Bio.Std.feature_description" class="py-name" href="#" onclick="return doclink('link-327', 'feature_description', 'link-327');">feature_description</a></tt><tt class="py-op">,</tt> <tt id="link-328" class="py-name"><a title="Bio.Std.NS" class="py-name" href="#" onclick="return doclink('link-328', 'NS', 'link-5');">NS</a></tt> <tt class="py-op">+</tt> <tt class="py-string">"feature_description"</tt><tt class="py-op">)</tt> </tt>
<a name="L303"></a><tt class="py-lineno">303</tt> <tt class="py-line"> </tt>
<a name="L304"></a><tt class="py-lineno">304</tt> <tt class="py-line"> </tt>
<a name="L305"></a><tt class="py-lineno">305</tt> <tt class="py-line"><tt class="py-comment">##def feature_qualifier_block(expr, attrs = {}):</tt> </tt>
<a name="L306"></a><tt class="py-lineno">306</tt> <tt class="py-line"><tt class="py-comment"></tt><tt class="py-comment">## attrs = _check_attrs(attrs, ())</tt> </tt>
<a name="L307"></a><tt class="py-lineno">307</tt> <tt class="py-line"><tt class="py-comment"></tt><tt class="py-comment">## _must_have(expr, feature_qualifier)</tt> </tt>
<a name="L308"></a><tt class="py-lineno">308</tt> <tt class="py-line"><tt class="py-comment"></tt><tt class="py-comment">## return Group(NS + "feature_qualifier_block", expr)</tt> </tt>
<a name="L309"></a><tt class="py-lineno">309</tt> <tt class="py-line"><tt class="py-comment"></tt><tt class="py-comment">##_settag(feature_qualifier_block, NS + "feature_qualifier_block")</tt> </tt>
<a name="L310"></a><tt class="py-lineno">310</tt> <tt class="py-line"><tt class="py-comment"></tt> </tt>
<a name="feature_qualifier"></a><div id="feature_qualifier-def"><a name="L311"></a><tt class="py-lineno">311</tt> <a class="py-toggle" href="#" id="feature_qualifier-toggle" onclick="return toggle('feature_qualifier');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#feature_qualifier">feature_qualifier</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">attrs</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="feature_qualifier-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="feature_qualifier-expanded"><a name="L312"></a><tt class="py-lineno">312</tt> <tt class="py-line"> <tt id="link-329" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-329', 'attrs', 'link-9');">attrs</a></tt> <tt class="py-op">=</tt> <tt id="link-330" class="py-name"><a title="Bio.Std._check_attrs" class="py-name" href="#" onclick="return doclink('link-330', '_check_attrs', 'link-87');">_check_attrs</a></tt><tt class="py-op">(</tt><tt id="link-331" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-331', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L313"></a><tt class="py-lineno">313</tt> <tt class="py-line"> <tt id="link-332" class="py-name"><a title="Bio.Std._must_have" class="py-name" href="#" onclick="return doclink('link-332', '_must_have', 'link-117');">_must_have</a></tt><tt class="py-op">(</tt><tt class="py-name">expr</tt><tt class="py-op">,</tt> <tt id="link-333" class="py-name" targets="Method Bio.GenBank._FeatureConsumer.feature_qualifier_name()=Bio.GenBank._FeatureConsumer-class.html#feature_qualifier_name,Method Bio.GenBank._RecordConsumer.feature_qualifier_name()=Bio.GenBank._RecordConsumer-class.html#feature_qualifier_name,Function Bio.Std.feature_qualifier_name()=Bio.Std-module.html#feature_qualifier_name"><a title="Bio.GenBank._FeatureConsumer.feature_qualifier_name
Bio.GenBank._RecordConsumer.feature_qualifier_name
Bio.Std.feature_qualifier_name" class="py-name" href="#" onclick="return doclink('link-333', 'feature_qualifier_name', 'link-333');">feature_qualifier_name</a></tt><tt class="py-op">)</tt> </tt>
<a name="L314"></a><tt class="py-lineno">314</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt id="link-334" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-334', 'Group', 'link-1');">Group</a></tt><tt class="py-op">(</tt><tt id="link-335" class="py-name"><a title="Bio.Std.NS" class="py-name" href="#" onclick="return doclink('link-335', 'NS', 'link-5');">NS</a></tt> <tt class="py-op">+</tt> <tt class="py-string">"feature_qualifier"</tt><tt class="py-op">,</tt> <tt class="py-name">expr</tt><tt class="py-op">)</tt> </tt>
</div><a name="L315"></a><tt class="py-lineno">315</tt> <tt class="py-line"><tt id="link-336" class="py-name"><a title="Bio.Std._settag" class="py-name" href="#" onclick="return doclink('link-336', '_settag', 'link-96');">_settag</a></tt><tt class="py-op">(</tt><tt id="link-337" class="py-name" targets="Function Bio.Std.feature_qualifier()=Bio.Std-module.html#feature_qualifier,Variable Bio.expressions.embl.embl65.feature_qualifier=Bio.expressions.embl.embl65-module.html#feature_qualifier"><a title="Bio.Std.feature_qualifier
Bio.expressions.embl.embl65.feature_qualifier" class="py-name" href="#" onclick="return doclink('link-337', 'feature_qualifier', 'link-337');">feature_qualifier</a></tt><tt class="py-op">,</tt> <tt id="link-338" class="py-name"><a title="Bio.Std.NS" class="py-name" href="#" onclick="return doclink('link-338', 'NS', 'link-5');">NS</a></tt> <tt class="py-op">+</tt> <tt class="py-string">"feature_qualifier"</tt><tt class="py-op">)</tt> </tt>
<a name="L316"></a><tt class="py-lineno">316</tt> <tt class="py-line"> </tt>
<a name="feature_qualifier_name"></a><div id="feature_qualifier_name-def"><a name="L317"></a><tt class="py-lineno">317</tt> <a class="py-toggle" href="#" id="feature_qualifier_name-toggle" onclick="return toggle('feature_qualifier_name');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#feature_qualifier_name">feature_qualifier_name</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">attrs</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="feature_qualifier_name-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="feature_qualifier_name-expanded"><a name="L318"></a><tt class="py-lineno">318</tt> <tt class="py-line"> <tt id="link-339" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-339', 'attrs', 'link-9');">attrs</a></tt> <tt class="py-op">=</tt> <tt id="link-340" class="py-name"><a title="Bio.Std._check_attrs" class="py-name" href="#" onclick="return doclink('link-340', '_check_attrs', 'link-87');">_check_attrs</a></tt><tt class="py-op">(</tt><tt id="link-341" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-341', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L319"></a><tt class="py-lineno">319</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt id="link-342" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-342', 'Group', 'link-1');">Group</a></tt><tt class="py-op">(</tt><tt id="link-343" class="py-name"><a title="Bio.Std.NS" class="py-name" href="#" onclick="return doclink('link-343', 'NS', 'link-5');">NS</a></tt> <tt class="py-op">+</tt> <tt class="py-string">"feature_qualifier_name"</tt><tt class="py-op">,</tt> <tt class="py-name">expr</tt><tt class="py-op">)</tt> </tt>
</div><a name="L320"></a><tt class="py-lineno">320</tt> <tt class="py-line"><tt id="link-344" class="py-name"><a title="Bio.Std._settag" class="py-name" href="#" onclick="return doclink('link-344', '_settag', 'link-96');">_settag</a></tt><tt class="py-op">(</tt><tt id="link-345" class="py-name"><a title="Bio.GenBank._FeatureConsumer.feature_qualifier_name
Bio.GenBank._RecordConsumer.feature_qualifier_name
Bio.Std.feature_qualifier_name" class="py-name" href="#" onclick="return doclink('link-345', 'feature_qualifier_name', 'link-333');">feature_qualifier_name</a></tt><tt class="py-op">,</tt> <tt id="link-346" class="py-name"><a title="Bio.Std.NS" class="py-name" href="#" onclick="return doclink('link-346', 'NS', 'link-5');">NS</a></tt> <tt class="py-op">+</tt> <tt class="py-string">"feature_qualifier_name"</tt><tt class="py-op">)</tt> </tt>
<a name="L321"></a><tt class="py-lineno">321</tt> <tt class="py-line"> </tt>
<a name="feature_qualifier_description"></a><div id="feature_qualifier_description-def"><a name="L322"></a><tt class="py-lineno">322</tt> <a class="py-toggle" href="#" id="feature_qualifier_description-toggle" onclick="return toggle('feature_qualifier_description');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#feature_qualifier_description">feature_qualifier_description</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">attrs</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="feature_qualifier_description-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="feature_qualifier_description-expanded"><a name="L323"></a><tt class="py-lineno">323</tt> <tt class="py-line"> <tt id="link-347" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-347', 'attrs', 'link-9');">attrs</a></tt> <tt class="py-op">=</tt> <tt id="link-348" class="py-name"><a title="Bio.Std._check_attrs" class="py-name" href="#" onclick="return doclink('link-348', '_check_attrs', 'link-87');">_check_attrs</a></tt><tt class="py-op">(</tt><tt id="link-349" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-349', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L324"></a><tt class="py-lineno">324</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt id="link-350" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-350', 'Group', 'link-1');">Group</a></tt><tt class="py-op">(</tt><tt id="link-351" class="py-name"><a title="Bio.Std.NS" class="py-name" href="#" onclick="return doclink('link-351', 'NS', 'link-5');">NS</a></tt> <tt class="py-op">+</tt> <tt class="py-string">"feature_qualifier_description"</tt><tt class="py-op">,</tt> <tt class="py-name">expr</tt><tt class="py-op">)</tt> </tt>
</div><a name="L325"></a><tt class="py-lineno">325</tt> <tt class="py-line"><tt id="link-352" class="py-name"><a title="Bio.Std._settag" class="py-name" href="#" onclick="return doclink('link-352', '_settag', 'link-96');">_settag</a></tt><tt class="py-op">(</tt><tt id="link-353" class="py-name" targets="Method Bio.GenBank._FeatureConsumer.feature_qualifier_description()=Bio.GenBank._FeatureConsumer-class.html#feature_qualifier_description,Method Bio.GenBank._RecordConsumer.feature_qualifier_description()=Bio.GenBank._RecordConsumer-class.html#feature_qualifier_description,Function Bio.Std.feature_qualifier_description()=Bio.Std-module.html#feature_qualifier_description"><a title="Bio.GenBank._FeatureConsumer.feature_qualifier_description
Bio.GenBank._RecordConsumer.feature_qualifier_description
Bio.Std.feature_qualifier_description" class="py-name" href="#" onclick="return doclink('link-353', 'feature_qualifier_description', 'link-353');">feature_qualifier_description</a></tt><tt class="py-op">,</tt> <tt id="link-354" class="py-name"><a title="Bio.Std.NS" class="py-name" href="#" onclick="return doclink('link-354', 'NS', 'link-5');">NS</a></tt> <tt class="py-op">+</tt> <tt class="py-string">"feature_qualifier_description"</tt><tt class="py-op">)</tt> </tt>
<a name="L326"></a><tt class="py-lineno">326</tt> <tt class="py-line"> </tt>
<a name="L327"></a><tt class="py-lineno">327</tt> <tt class="py-line"> </tt>
<a name="L328"></a><tt class="py-lineno">328</tt> <tt class="py-line"><tt class="py-comment">############ For homology searches</tt> </tt>
<a name="L329"></a><tt class="py-lineno">329</tt> <tt class="py-line"><tt class="py-comment"></tt> </tt>
<a name="L330"></a><tt class="py-lineno">330</tt> <tt class="py-line"><tt class="py-comment"># "BLASTN", "BLASTP"</tt> </tt>
<a name="application_name"></a><div id="application_name-def"><a name="L331"></a><tt class="py-lineno">331</tt> <a class="py-toggle" href="#" id="application_name-toggle" onclick="return toggle('application_name');">-</a><tt class="py-line"><tt class="py-comment"></tt><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#application_name">application_name</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">attrs</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="application_name-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="application_name-expanded"><a name="L332"></a><tt class="py-lineno">332</tt> <tt class="py-line"> <tt id="link-355" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-355', 'attrs', 'link-9');">attrs</a></tt> <tt class="py-op">=</tt> <tt id="link-356" class="py-name"><a title="Bio.Std._check_attrs" class="py-name" href="#" onclick="return doclink('link-356', '_check_attrs', 'link-87');">_check_attrs</a></tt><tt class="py-op">(</tt><tt id="link-357" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-357', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-string">"app"</tt><tt class="py-op">,</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L333"></a><tt class="py-lineno">333</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt id="link-358" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-358', 'Group', 'link-1');">Group</a></tt><tt class="py-op">(</tt><tt class="py-string">"bioformat:application_name"</tt><tt class="py-op">,</tt> <tt class="py-name">expr</tt><tt class="py-op">,</tt> <tt id="link-359" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-359', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">)</tt> </tt>
</div><a name="L334"></a><tt class="py-lineno">334</tt> <tt class="py-line"> </tt>
<a name="L335"></a><tt class="py-lineno">335</tt> <tt class="py-line"><tt class="py-comment"># "2.0.11", "2.0a19MP-WashU"</tt> </tt>
<a name="application_version"></a><div id="application_version-def"><a name="L336"></a><tt class="py-lineno">336</tt> <a class="py-toggle" href="#" id="application_version-toggle" onclick="return toggle('application_version');">-</a><tt class="py-line"><tt class="py-comment"></tt><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#application_version">application_version</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">attrs</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="application_version-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="application_version-expanded"><a name="L337"></a><tt class="py-lineno">337</tt> <tt class="py-line"> <tt id="link-360" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-360', 'attrs', 'link-9');">attrs</a></tt> <tt class="py-op">=</tt> <tt id="link-361" class="py-name"><a title="Bio.Std._check_attrs" class="py-name" href="#" onclick="return doclink('link-361', '_check_attrs', 'link-87');">_check_attrs</a></tt><tt class="py-op">(</tt><tt id="link-362" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-362', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L338"></a><tt class="py-lineno">338</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt id="link-363" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-363', 'Group', 'link-1');">Group</a></tt><tt class="py-op">(</tt><tt class="py-string">"bioformat:application_version"</tt><tt class="py-op">,</tt> <tt class="py-name">expr</tt><tt class="py-op">,</tt> <tt id="link-364" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-364', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">)</tt> </tt>
</div><a name="L339"></a><tt class="py-lineno">339</tt> <tt class="py-line"> </tt>
<a name="search_header"></a><div id="search_header-def"><a name="L340"></a><tt class="py-lineno">340</tt> <a class="py-toggle" href="#" id="search_header-toggle" onclick="return toggle('search_header');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#search_header">search_header</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">attrs</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="search_header-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="search_header-expanded"><a name="L341"></a><tt class="py-lineno">341</tt> <tt class="py-line"> <tt id="link-365" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-365', 'attrs', 'link-9');">attrs</a></tt> <tt class="py-op">=</tt> <tt id="link-366" class="py-name"><a title="Bio.Std._check_attrs" class="py-name" href="#" onclick="return doclink('link-366', '_check_attrs', 'link-87');">_check_attrs</a></tt><tt class="py-op">(</tt><tt id="link-367" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-367', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L342"></a><tt class="py-lineno">342</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt id="link-368" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-368', 'Group', 'link-1');">Group</a></tt><tt class="py-op">(</tt><tt class="py-string">"bioformat:search_header"</tt><tt class="py-op">,</tt> <tt class="py-name">expr</tt><tt class="py-op">,</tt> <tt id="link-369" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-369', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">)</tt> </tt>
</div><a name="L343"></a><tt class="py-lineno">343</tt> <tt class="py-line"> </tt>
<a name="search_table"></a><div id="search_table-def"><a name="L344"></a><tt class="py-lineno">344</tt> <a class="py-toggle" href="#" id="search_table-toggle" onclick="return toggle('search_table');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#search_table">search_table</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">attrs</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="search_table-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="search_table-expanded"><a name="L345"></a><tt class="py-lineno">345</tt> <tt class="py-line"> <tt id="link-370" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-370', 'attrs', 'link-9');">attrs</a></tt> <tt class="py-op">=</tt> <tt id="link-371" class="py-name"><a title="Bio.Std._check_attrs" class="py-name" href="#" onclick="return doclink('link-371', '_check_attrs', 'link-87');">_check_attrs</a></tt><tt class="py-op">(</tt><tt id="link-372" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-372', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L346"></a><tt class="py-lineno">346</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt id="link-373" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-373', 'Group', 'link-1');">Group</a></tt><tt class="py-op">(</tt><tt class="py-string">"bioformat:search_table"</tt><tt class="py-op">,</tt> <tt class="py-name">expr</tt><tt class="py-op">,</tt> <tt id="link-374" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-374', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">)</tt> </tt>
</div><a name="L347"></a><tt class="py-lineno">347</tt> <tt class="py-line"> </tt>
<a name="search_table_description"></a><div id="search_table_description-def"><a name="L348"></a><tt class="py-lineno">348</tt> <a class="py-toggle" href="#" id="search_table_description-toggle" onclick="return toggle('search_table_description');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#search_table_description">search_table_description</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">attrs</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="search_table_description-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="search_table_description-expanded"><a name="L349"></a><tt class="py-lineno">349</tt> <tt class="py-line"> <tt id="link-375" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-375', 'attrs', 'link-9');">attrs</a></tt> <tt class="py-op">=</tt> <tt id="link-376" class="py-name"><a title="Bio.Std._check_attrs" class="py-name" href="#" onclick="return doclink('link-376', '_check_attrs', 'link-87');">_check_attrs</a></tt><tt class="py-op">(</tt><tt id="link-377" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-377', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-string">"bioformat:decode"</tt><tt class="py-op">,</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L350"></a><tt class="py-lineno">350</tt> <tt class="py-line"> <tt id="link-378" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-378', 'd', 'link-14');">d</a></tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-string">"bioformat:decode"</tt><tt class="py-op">:</tt> <tt class="py-string">"strip"</tt><tt class="py-op">}</tt> </tt>
<a name="L351"></a><tt class="py-lineno">351</tt> <tt class="py-line"> <tt id="link-379" class="py-name"><a title="Bio.Std._set_if_given" class="py-name" href="#" onclick="return doclink('link-379', '_set_if_given', 'link-91');">_set_if_given</a></tt><tt class="py-op">(</tt><tt id="link-380" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-380', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-string">"bioformat:decode"</tt><tt class="py-op">,</tt> <tt id="link-381" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-381', 'd', 'link-14');">d</a></tt><tt class="py-op">)</tt> </tt>
<a name="L352"></a><tt class="py-lineno">352</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt id="link-382" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-382', 'Group', 'link-1');">Group</a></tt><tt class="py-op">(</tt><tt class="py-string">"bioformat:search_table_description"</tt><tt class="py-op">,</tt> <tt class="py-name">expr</tt><tt class="py-op">,</tt> <tt id="link-383" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-383', 'd', 'link-14');">d</a></tt><tt class="py-op">)</tt> </tt>
</div><a name="L353"></a><tt class="py-lineno">353</tt> <tt class="py-line"> </tt>
<a name="search_table_value"></a><div id="search_table_value-def"><a name="L354"></a><tt class="py-lineno">354</tt> <a class="py-toggle" href="#" id="search_table_value-toggle" onclick="return toggle('search_table_value');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#search_table_value">search_table_value</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">attrs</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="search_table_value-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="search_table_value-expanded"><a name="L355"></a><tt class="py-lineno">355</tt> <tt class="py-line"> <tt id="link-384" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-384', 'attrs', 'link-9');">attrs</a></tt> <tt class="py-op">=</tt> <tt id="link-385" class="py-name"><a title="Bio.Std._check_attrs" class="py-name" href="#" onclick="return doclink('link-385', '_check_attrs', 'link-87');">_check_attrs</a></tt><tt class="py-op">(</tt><tt id="link-386" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-386', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-string">"name"</tt><tt class="py-op">,</tt> <tt class="py-string">"bioformat:decode"</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L356"></a><tt class="py-lineno">356</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt id="link-387" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-387', 'Group', 'link-1');">Group</a></tt><tt class="py-op">(</tt><tt class="py-string">"bioformat:search_table_value"</tt><tt class="py-op">,</tt> <tt class="py-name">expr</tt><tt class="py-op">,</tt> <tt id="link-388" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-388', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">)</tt> </tt>
</div><a name="L357"></a><tt class="py-lineno">357</tt> <tt class="py-line"> </tt>
<a name="search_table_entry"></a><div id="search_table_entry-def"><a name="L358"></a><tt class="py-lineno">358</tt> <a class="py-toggle" href="#" id="search_table_entry-toggle" onclick="return toggle('search_table_entry');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#search_table_entry">search_table_entry</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">attrs</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="search_table_entry-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="search_table_entry-expanded"><a name="L359"></a><tt class="py-lineno">359</tt> <tt class="py-line"> <tt id="link-389" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-389', 'attrs', 'link-9');">attrs</a></tt> <tt class="py-op">=</tt> <tt id="link-390" class="py-name"><a title="Bio.Std._check_attrs" class="py-name" href="#" onclick="return doclink('link-390', '_check_attrs', 'link-87');">_check_attrs</a></tt><tt class="py-op">(</tt><tt id="link-391" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-391', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L360"></a><tt class="py-lineno">360</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt id="link-392" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-392', 'Group', 'link-1');">Group</a></tt><tt class="py-op">(</tt><tt class="py-string">"bioformat:search_table_entry"</tt><tt class="py-op">,</tt> <tt class="py-name">expr</tt><tt class="py-op">,</tt> <tt id="link-393" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-393', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">)</tt> </tt>
</div><a name="L361"></a><tt class="py-lineno">361</tt> <tt class="py-line"> </tt>
<a name="query_description_block"></a><div id="query_description_block-def"><a name="L362"></a><tt class="py-lineno">362</tt> <a class="py-toggle" href="#" id="query_description_block-toggle" onclick="return toggle('query_description_block');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#query_description_block">query_description_block</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">attrs</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="query_description_block-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="query_description_block-expanded"><a name="L363"></a><tt class="py-lineno">363</tt> <tt class="py-line"> <tt id="link-394" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-394', 'attrs', 'link-9');">attrs</a></tt> <tt class="py-op">=</tt> <tt id="link-395" class="py-name"><a title="Bio.Std._check_attrs" class="py-name" href="#" onclick="return doclink('link-395', '_check_attrs', 'link-87');">_check_attrs</a></tt><tt class="py-op">(</tt><tt id="link-396" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-396', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-string">"join-query"</tt><tt class="py-op">,</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L364"></a><tt class="py-lineno">364</tt> <tt class="py-line"> <tt id="link-397" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-397', 'd', 'link-14');">d</a></tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-string">"join-query"</tt><tt class="py-op">:</tt> <tt class="py-string">"join|fixspaces"</tt><tt class="py-op">}</tt> </tt>
<a name="L365"></a><tt class="py-lineno">365</tt> <tt class="py-line"> <tt id="link-398" class="py-name"><a title="Bio.Std._set_if_given" class="py-name" href="#" onclick="return doclink('link-398', '_set_if_given', 'link-91');">_set_if_given</a></tt><tt class="py-op">(</tt><tt id="link-399" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-399', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-string">"join-query"</tt><tt class="py-op">,</tt> <tt id="link-400" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-400', 'd', 'link-14');">d</a></tt><tt class="py-op">)</tt> </tt>
<a name="L366"></a><tt class="py-lineno">366</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt id="link-401" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-401', 'Group', 'link-1');">Group</a></tt><tt class="py-op">(</tt><tt class="py-string">"bioformat:query_description_block"</tt><tt class="py-op">,</tt> <tt class="py-name">expr</tt><tt class="py-op">,</tt> <tt id="link-402" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-402', 'd', 'link-14');">d</a></tt><tt class="py-op">)</tt> </tt>
</div><a name="L367"></a><tt class="py-lineno">367</tt> <tt class="py-line"> </tt>
<a name="query_description"></a><div id="query_description-def"><a name="L368"></a><tt class="py-lineno">368</tt> <a class="py-toggle" href="#" id="query_description-toggle" onclick="return toggle('query_description');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#query_description">query_description</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">attrs</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="query_description-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="query_description-expanded"><a name="L369"></a><tt class="py-lineno">369</tt> <tt class="py-line"> <tt id="link-403" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-403', 'attrs', 'link-9');">attrs</a></tt> <tt class="py-op">=</tt> <tt id="link-404" class="py-name"><a title="Bio.Std._check_attrs" class="py-name" href="#" onclick="return doclink('link-404', '_check_attrs', 'link-87');">_check_attrs</a></tt><tt class="py-op">(</tt><tt id="link-405" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-405', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-string">"bioformat:decode"</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L370"></a><tt class="py-lineno">370</tt> <tt class="py-line"> <tt id="link-406" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-406', 'd', 'link-14');">d</a></tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt> </tt>
<a name="L371"></a><tt class="py-lineno">371</tt> <tt class="py-line"> <tt id="link-407" class="py-name"><a title="Bio.Std._set_if_given" class="py-name" href="#" onclick="return doclink('link-407', '_set_if_given', 'link-91');">_set_if_given</a></tt><tt class="py-op">(</tt><tt id="link-408" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-408', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-string">"bioformat:decode"</tt><tt class="py-op">,</tt> <tt id="link-409" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-409', 'd', 'link-14');">d</a></tt><tt class="py-op">)</tt> </tt>
<a name="L372"></a><tt class="py-lineno">372</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt id="link-410" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-410', 'Group', 'link-1');">Group</a></tt><tt class="py-op">(</tt><tt class="py-string">"bioformat:query_description"</tt><tt class="py-op">,</tt> <tt class="py-name">expr</tt><tt class="py-op">,</tt> <tt id="link-411" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-411', 'd', 'link-14');">d</a></tt><tt class="py-op">)</tt> </tt>
</div><a name="L373"></a><tt class="py-lineno">373</tt> <tt class="py-line"> </tt>
<a name="query_size"></a><div id="query_size-def"><a name="L374"></a><tt class="py-lineno">374</tt> <a class="py-toggle" href="#" id="query_size-toggle" onclick="return toggle('query_size');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#query_size">query_size</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">attrs</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="query_size-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="query_size-expanded"><a name="L375"></a><tt class="py-lineno">375</tt> <tt class="py-line"> <tt id="link-412" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-412', 'attrs', 'link-9');">attrs</a></tt> <tt class="py-op">=</tt> <tt id="link-413" class="py-name"><a title="Bio.Std._check_attrs" class="py-name" href="#" onclick="return doclink('link-413', '_check_attrs', 'link-87');">_check_attrs</a></tt><tt class="py-op">(</tt><tt id="link-414" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-414', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L376"></a><tt class="py-lineno">376</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt id="link-415" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-415', 'Group', 'link-1');">Group</a></tt><tt class="py-op">(</tt><tt class="py-string">"bioformat:query_size"</tt><tt class="py-op">,</tt> <tt class="py-name">expr</tt><tt class="py-op">)</tt> </tt>
</div><a name="L377"></a><tt class="py-lineno">377</tt> <tt class="py-line"> </tt>
<a name="database_name"></a><div id="database_name-def"><a name="L378"></a><tt class="py-lineno">378</tt> <a class="py-toggle" href="#" id="database_name-toggle" onclick="return toggle('database_name');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#database_name">database_name</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">attrs</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="database_name-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="database_name-expanded"><a name="L379"></a><tt class="py-lineno">379</tt> <tt class="py-line"> <tt id="link-416" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-416', 'attrs', 'link-9');">attrs</a></tt> <tt class="py-op">=</tt> <tt id="link-417" class="py-name"><a title="Bio.Std._check_attrs" class="py-name" href="#" onclick="return doclink('link-417', '_check_attrs', 'link-87');">_check_attrs</a></tt><tt class="py-op">(</tt><tt id="link-418" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-418', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L380"></a><tt class="py-lineno">380</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt id="link-419" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-419', 'Group', 'link-1');">Group</a></tt><tt class="py-op">(</tt><tt class="py-string">"bioformat:database_name"</tt><tt class="py-op">,</tt> <tt class="py-name">expr</tt><tt class="py-op">,</tt> <tt id="link-420" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-420', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">)</tt> </tt>
</div><a name="L381"></a><tt class="py-lineno">381</tt> <tt class="py-line"> </tt>
<a name="database_num_sequences"></a><div id="database_num_sequences-def"><a name="L382"></a><tt class="py-lineno">382</tt> <a class="py-toggle" href="#" id="database_num_sequences-toggle" onclick="return toggle('database_num_sequences');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#database_num_sequences">database_num_sequences</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">attrs</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="database_num_sequences-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="database_num_sequences-expanded"><a name="L383"></a><tt class="py-lineno">383</tt> <tt class="py-line"> <tt id="link-421" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-421', 'attrs', 'link-9');">attrs</a></tt> <tt class="py-op">=</tt> <tt id="link-422" class="py-name"><a title="Bio.Std._check_attrs" class="py-name" href="#" onclick="return doclink('link-422', '_check_attrs', 'link-87');">_check_attrs</a></tt><tt class="py-op">(</tt><tt id="link-423" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-423', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-string">"bioformat:decode"</tt><tt class="py-op">,</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L384"></a><tt class="py-lineno">384</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt id="link-424" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-424', 'Group', 'link-1');">Group</a></tt><tt class="py-op">(</tt><tt class="py-string">"bioformat:database_num_sequences"</tt><tt class="py-op">,</tt> <tt class="py-name">expr</tt><tt class="py-op">,</tt> <tt id="link-425" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-425', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">)</tt> </tt>
</div><a name="L385"></a><tt class="py-lineno">385</tt> <tt class="py-line"> </tt>
<a name="database_num_letters"></a><div id="database_num_letters-def"><a name="L386"></a><tt class="py-lineno">386</tt> <a class="py-toggle" href="#" id="database_num_letters-toggle" onclick="return toggle('database_num_letters');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#database_num_letters">database_num_letters</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">attrs</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="database_num_letters-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="database_num_letters-expanded"><a name="L387"></a><tt class="py-lineno">387</tt> <tt class="py-line"> <tt id="link-426" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-426', 'attrs', 'link-9');">attrs</a></tt> <tt class="py-op">=</tt> <tt id="link-427" class="py-name"><a title="Bio.Std._check_attrs" class="py-name" href="#" onclick="return doclink('link-427', '_check_attrs', 'link-87');">_check_attrs</a></tt><tt class="py-op">(</tt><tt id="link-428" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-428', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-string">"bioformat:decode"</tt><tt class="py-op">,</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L388"></a><tt class="py-lineno">388</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt id="link-429" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-429', 'Group', 'link-1');">Group</a></tt><tt class="py-op">(</tt><tt class="py-string">"bioformat:database_num_letters"</tt><tt class="py-op">,</tt> <tt class="py-name">expr</tt><tt class="py-op">,</tt> <tt id="link-430" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-430', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">)</tt> </tt>
</div><a name="L389"></a><tt class="py-lineno">389</tt> <tt class="py-line"> </tt>
<a name="hit"></a><div id="hit-def"><a name="L390"></a><tt class="py-lineno">390</tt> <a class="py-toggle" href="#" id="hit-toggle" onclick="return toggle('hit');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#hit">hit</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">attrs</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="hit-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="hit-expanded"><a name="L391"></a><tt class="py-lineno">391</tt> <tt class="py-line"> <tt id="link-431" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-431', 'attrs', 'link-9');">attrs</a></tt> <tt class="py-op">=</tt> <tt id="link-432" class="py-name"><a title="Bio.Std._check_attrs" class="py-name" href="#" onclick="return doclink('link-432', '_check_attrs', 'link-87');">_check_attrs</a></tt><tt class="py-op">(</tt><tt id="link-433" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-433', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-string">"join-description"</tt><tt class="py-op">,</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L392"></a><tt class="py-lineno">392</tt> <tt class="py-line"> <tt id="link-434" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-434', 'd', 'link-14');">d</a></tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-string">"join-description"</tt><tt class="py-op">:</tt> <tt class="py-string">"join|fixspaces"</tt><tt class="py-op">}</tt> </tt>
<a name="L393"></a><tt class="py-lineno">393</tt> <tt class="py-line"> <tt id="link-435" class="py-name"><a title="Bio.Std._set_if_given" class="py-name" href="#" onclick="return doclink('link-435', '_set_if_given', 'link-91');">_set_if_given</a></tt><tt class="py-op">(</tt><tt id="link-436" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-436', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-string">"join-description"</tt><tt class="py-op">,</tt> <tt id="link-437" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-437', 'd', 'link-14');">d</a></tt><tt class="py-op">)</tt> </tt>
<a name="L394"></a><tt class="py-lineno">394</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt id="link-438" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-438', 'Group', 'link-1');">Group</a></tt><tt class="py-op">(</tt><tt class="py-string">"bioformat:hit"</tt><tt class="py-op">,</tt> <tt class="py-name">expr</tt><tt class="py-op">,</tt> <tt id="link-439" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-439', 'd', 'link-14');">d</a></tt><tt class="py-op">)</tt> </tt>
</div><a name="L395"></a><tt class="py-lineno">395</tt> <tt class="py-line"> </tt>
<a name="hit_length"></a><div id="hit_length-def"><a name="L396"></a><tt class="py-lineno">396</tt> <a class="py-toggle" href="#" id="hit_length-toggle" onclick="return toggle('hit_length');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#hit_length">hit_length</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">attrs</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="hit_length-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="hit_length-expanded"><a name="L397"></a><tt class="py-lineno">397</tt> <tt class="py-line"> <tt id="link-440" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-440', 'attrs', 'link-9');">attrs</a></tt> <tt class="py-op">=</tt> <tt id="link-441" class="py-name"><a title="Bio.Std._check_attrs" class="py-name" href="#" onclick="return doclink('link-441', '_check_attrs', 'link-87');">_check_attrs</a></tt><tt class="py-op">(</tt><tt id="link-442" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-442', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L398"></a><tt class="py-lineno">398</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt id="link-443" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-443', 'Group', 'link-1');">Group</a></tt><tt class="py-op">(</tt><tt class="py-string">"bioformat:hit_length"</tt><tt class="py-op">,</tt> <tt class="py-name">expr</tt><tt class="py-op">,</tt> <tt id="link-444" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-444', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">)</tt> </tt>
</div><a name="L399"></a><tt class="py-lineno">399</tt> <tt class="py-line"> </tt>
<a name="hit_description"></a><div id="hit_description-def"><a name="L400"></a><tt class="py-lineno">400</tt> <a class="py-toggle" href="#" id="hit_description-toggle" onclick="return toggle('hit_description');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#hit_description">hit_description</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">attrs</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="hit_description-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="hit_description-expanded"><a name="L401"></a><tt class="py-lineno">401</tt> <tt class="py-line"> <tt id="link-445" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-445', 'attrs', 'link-9');">attrs</a></tt> <tt class="py-op">=</tt> <tt id="link-446" class="py-name"><a title="Bio.Std._check_attrs" class="py-name" href="#" onclick="return doclink('link-446', '_check_attrs', 'link-87');">_check_attrs</a></tt><tt class="py-op">(</tt><tt id="link-447" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-447', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-string">"bioformat:decode"</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L402"></a><tt class="py-lineno">402</tt> <tt class="py-line"> <tt id="link-448" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-448', 'd', 'link-14');">d</a></tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt> </tt>
<a name="L403"></a><tt class="py-lineno">403</tt> <tt class="py-line"> <tt id="link-449" class="py-name"><a title="Bio.Std._set_if_given" class="py-name" href="#" onclick="return doclink('link-449', '_set_if_given', 'link-91');">_set_if_given</a></tt><tt class="py-op">(</tt><tt id="link-450" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-450', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-string">"bioformat:decode"</tt><tt class="py-op">,</tt> <tt id="link-451" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-451', 'd', 'link-14');">d</a></tt><tt class="py-op">)</tt> </tt>
<a name="L404"></a><tt class="py-lineno">404</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt id="link-452" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-452', 'Group', 'link-1');">Group</a></tt><tt class="py-op">(</tt><tt class="py-string">"bioformat:hit_description"</tt><tt class="py-op">,</tt> <tt class="py-name">expr</tt><tt class="py-op">,</tt> <tt id="link-453" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-453', 'd', 'link-14');">d</a></tt><tt class="py-op">)</tt> </tt>
</div><a name="L405"></a><tt class="py-lineno">405</tt> <tt class="py-line"> </tt>
<a name="hsp"></a><div id="hsp-def"><a name="L406"></a><tt class="py-lineno">406</tt> <a class="py-toggle" href="#" id="hsp-toggle" onclick="return toggle('hsp');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#hsp">hsp</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">attrs</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="hsp-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="hsp-expanded"><a name="L407"></a><tt class="py-lineno">407</tt> <tt class="py-line"> <tt id="link-454" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-454', 'attrs', 'link-9');">attrs</a></tt> <tt class="py-op">=</tt> <tt id="link-455" class="py-name"><a title="Bio.Std._check_attrs" class="py-name" href="#" onclick="return doclink('link-455', '_check_attrs', 'link-87');">_check_attrs</a></tt><tt class="py-op">(</tt><tt id="link-456" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-456', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L408"></a><tt class="py-lineno">408</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt id="link-457" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-457', 'Group', 'link-1');">Group</a></tt><tt class="py-op">(</tt><tt class="py-string">"bioformat:hsp"</tt><tt class="py-op">,</tt> <tt class="py-name">expr</tt><tt class="py-op">,</tt> <tt id="link-458" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-458', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">)</tt> </tt>
</div><a name="L409"></a><tt class="py-lineno">409</tt> <tt class="py-line"> </tt>
<a name="hsp_value"></a><div id="hsp_value-def"><a name="L410"></a><tt class="py-lineno">410</tt> <a class="py-toggle" href="#" id="hsp_value-toggle" onclick="return toggle('hsp_value');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#hsp_value">hsp_value</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">attrs</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="hsp_value-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="hsp_value-expanded"><a name="L411"></a><tt class="py-lineno">411</tt> <tt class="py-line"> <tt id="link-459" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-459', 'attrs', 'link-9');">attrs</a></tt> <tt class="py-op">=</tt> <tt id="link-460" class="py-name"><a title="Bio.Std._check_attrs" class="py-name" href="#" onclick="return doclink('link-460', '_check_attrs', 'link-87');">_check_attrs</a></tt><tt class="py-op">(</tt><tt id="link-461" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-461', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-string">"name"</tt><tt class="py-op">,</tt> <tt class="py-string">"bioformat:decode"</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L412"></a><tt class="py-lineno">412</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt id="link-462" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-462', 'Group', 'link-1');">Group</a></tt><tt class="py-op">(</tt><tt class="py-string">"bioformat:hsp_value"</tt><tt class="py-op">,</tt> <tt class="py-name">expr</tt><tt class="py-op">,</tt> <tt id="link-463" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-463', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">)</tt> </tt>
</div><a name="L413"></a><tt class="py-lineno">413</tt> <tt class="py-line"> </tt>
<a name="hsp_frame"></a><div id="hsp_frame-def"><a name="L414"></a><tt class="py-lineno">414</tt> <a class="py-toggle" href="#" id="hsp_frame-toggle" onclick="return toggle('hsp_frame');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#hsp_frame">hsp_frame</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">attrs</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="hsp_frame-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="hsp_frame-expanded"><a name="L415"></a><tt class="py-lineno">415</tt> <tt class="py-line"> <tt id="link-464" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-464', 'attrs', 'link-9');">attrs</a></tt> <tt class="py-op">=</tt> <tt id="link-465" class="py-name"><a title="Bio.Std._check_attrs" class="py-name" href="#" onclick="return doclink('link-465', '_check_attrs', 'link-87');">_check_attrs</a></tt><tt class="py-op">(</tt><tt id="link-466" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-466', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-string">"which"</tt><tt class="py-op">,</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L416"></a><tt class="py-lineno">416</tt> <tt class="py-line"> <tt id="link-467" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-467', 'd', 'link-14');">d</a></tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt> </tt>
<a name="L417"></a><tt class="py-lineno">417</tt> <tt class="py-line"> <tt id="link-468" class="py-name"><a title="Bio.Std._set_if_given" class="py-name" href="#" onclick="return doclink('link-468', '_set_if_given', 'link-91');">_set_if_given</a></tt><tt class="py-op">(</tt><tt id="link-469" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-469', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-string">"which"</tt><tt class="py-op">,</tt> <tt id="link-470" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-470', 'd', 'link-14');">d</a></tt><tt class="py-op">,</tt> <tt class="py-name">valid</tt> <tt class="py-op">=</tt> <tt class="py-op">(</tt><tt class="py-string">"query"</tt><tt class="py-op">,</tt> <tt class="py-string">"homology"</tt><tt class="py-op">,</tt> <tt class="py-string">"subject"</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L418"></a><tt class="py-lineno">418</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt id="link-471" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-471', 'Group', 'link-1');">Group</a></tt><tt class="py-op">(</tt><tt class="py-string">"bioformat:hsp_frame"</tt><tt class="py-op">,</tt> <tt class="py-name">expr</tt><tt class="py-op">,</tt> <tt id="link-472" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-472', 'd', 'link-14');">d</a></tt><tt class="py-op">)</tt> </tt>
</div><a name="L419"></a><tt class="py-lineno">419</tt> <tt class="py-line"> </tt>
<a name="hsp_strand"></a><div id="hsp_strand-def"><a name="L420"></a><tt class="py-lineno">420</tt> <a class="py-toggle" href="#" id="hsp_strand-toggle" onclick="return toggle('hsp_strand');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#hsp_strand">hsp_strand</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">attrs</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="hsp_strand-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="hsp_strand-expanded"><a name="L421"></a><tt class="py-lineno">421</tt> <tt class="py-line"> <tt id="link-473" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-473', 'attrs', 'link-9');">attrs</a></tt> <tt class="py-op">=</tt> <tt id="link-474" class="py-name"><a title="Bio.Std._check_attrs" class="py-name" href="#" onclick="return doclink('link-474', '_check_attrs', 'link-87');">_check_attrs</a></tt><tt class="py-op">(</tt><tt id="link-475" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-475', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-string">"strand"</tt><tt class="py-op">,</tt> <tt class="py-string">"which"</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L422"></a><tt class="py-lineno">422</tt> <tt class="py-line"> <tt id="link-476" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-476', 'd', 'link-14');">d</a></tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt> </tt>
<a name="L423"></a><tt class="py-lineno">423</tt> <tt class="py-line"> <tt id="link-477" class="py-name"><a title="Bio.Std._set_if_given" class="py-name" href="#" onclick="return doclink('link-477', '_set_if_given', 'link-91');">_set_if_given</a></tt><tt class="py-op">(</tt><tt id="link-478" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-478', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-string">"which"</tt><tt class="py-op">,</tt> <tt id="link-479" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-479', 'd', 'link-14');">d</a></tt><tt class="py-op">,</tt> <tt class="py-name">valid</tt> <tt class="py-op">=</tt> <tt class="py-op">(</tt><tt class="py-string">"query"</tt><tt class="py-op">,</tt> <tt class="py-string">"homology"</tt><tt class="py-op">,</tt> <tt class="py-string">"subject"</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L424"></a><tt class="py-lineno">424</tt> <tt class="py-line"> <tt id="link-480" class="py-name"><a title="Bio.Std._set_if_given" class="py-name" href="#" onclick="return doclink('link-480', '_set_if_given', 'link-91');">_set_if_given</a></tt><tt class="py-op">(</tt><tt id="link-481" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-481', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-string">"strand"</tt><tt class="py-op">,</tt> <tt id="link-482" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-482', 'd', 'link-14');">d</a></tt><tt class="py-op">,</tt> <tt class="py-name">valid</tt> <tt class="py-op">=</tt> <tt class="py-op">(</tt><tt class="py-string">"+1"</tt><tt class="py-op">,</tt> <tt class="py-string">"0"</tt><tt class="py-op">,</tt> <tt class="py-string">"-1"</tt><tt class="py-op">,</tt> <tt class="py-string">""</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L425"></a><tt class="py-lineno">425</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt id="link-483" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-483', 'Group', 'link-1');">Group</a></tt><tt class="py-op">(</tt><tt class="py-string">"bioformat:hsp_strand"</tt><tt class="py-op">,</tt> <tt class="py-name">expr</tt><tt class="py-op">,</tt> <tt id="link-484" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-484', 'd', 'link-14');">d</a></tt><tt class="py-op">)</tt> </tt>
</div><a name="L426"></a><tt class="py-lineno">426</tt> <tt class="py-line"> </tt>
<a name="hsp_seqalign_query_seq"></a><div id="hsp_seqalign_query_seq-def"><a name="L427"></a><tt class="py-lineno">427</tt> <a class="py-toggle" href="#" id="hsp_seqalign_query_seq-toggle" onclick="return toggle('hsp_seqalign_query_seq');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#hsp_seqalign_query_seq">hsp_seqalign_query_seq</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">attrs</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="hsp_seqalign_query_seq-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="hsp_seqalign_query_seq-expanded"><a name="L428"></a><tt class="py-lineno">428</tt> <tt class="py-line"> <tt id="link-485" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-485', 'attrs', 'link-9');">attrs</a></tt> <tt class="py-op">=</tt> <tt id="link-486" class="py-name"><a title="Bio.Std._check_attrs" class="py-name" href="#" onclick="return doclink('link-486', '_check_attrs', 'link-87');">_check_attrs</a></tt><tt class="py-op">(</tt><tt id="link-487" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-487', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L429"></a><tt class="py-lineno">429</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt id="link-488" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-488', 'Group', 'link-1');">Group</a></tt><tt class="py-op">(</tt><tt class="py-string">"bioformat:hsp_seqalign_query_seq"</tt><tt class="py-op">,</tt> <tt class="py-name">expr</tt><tt class="py-op">,</tt> <tt id="link-489" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-489', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">)</tt> </tt>
</div><a name="L430"></a><tt class="py-lineno">430</tt> <tt class="py-line"> </tt>
<a name="hsp_seqalign_homology_seq"></a><div id="hsp_seqalign_homology_seq-def"><a name="L431"></a><tt class="py-lineno">431</tt> <a class="py-toggle" href="#" id="hsp_seqalign_homology_seq-toggle" onclick="return toggle('hsp_seqalign_homology_seq');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#hsp_seqalign_homology_seq">hsp_seqalign_homology_seq</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">attrs</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="hsp_seqalign_homology_seq-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="hsp_seqalign_homology_seq-expanded"><a name="L432"></a><tt class="py-lineno">432</tt> <tt class="py-line"> <tt id="link-490" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-490', 'attrs', 'link-9');">attrs</a></tt> <tt class="py-op">=</tt> <tt id="link-491" class="py-name"><a title="Bio.Std._check_attrs" class="py-name" href="#" onclick="return doclink('link-491', '_check_attrs', 'link-87');">_check_attrs</a></tt><tt class="py-op">(</tt><tt id="link-492" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-492', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L433"></a><tt class="py-lineno">433</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt id="link-493" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-493', 'Group', 'link-1');">Group</a></tt><tt class="py-op">(</tt><tt class="py-string">"bioformat:hsp_seqalign_homology_seq"</tt><tt class="py-op">,</tt> <tt class="py-name">expr</tt><tt class="py-op">,</tt> <tt id="link-494" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-494', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">)</tt> </tt>
</div><a name="L434"></a><tt class="py-lineno">434</tt> <tt class="py-line"> </tt>
<a name="hsp_seqalign_subject_seq"></a><div id="hsp_seqalign_subject_seq-def"><a name="L435"></a><tt class="py-lineno">435</tt> <a class="py-toggle" href="#" id="hsp_seqalign_subject_seq-toggle" onclick="return toggle('hsp_seqalign_subject_seq');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#hsp_seqalign_subject_seq">hsp_seqalign_subject_seq</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">attrs</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="hsp_seqalign_subject_seq-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="hsp_seqalign_subject_seq-expanded"><a name="L436"></a><tt class="py-lineno">436</tt> <tt class="py-line"> <tt id="link-495" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-495', 'attrs', 'link-9');">attrs</a></tt> <tt class="py-op">=</tt> <tt id="link-496" class="py-name"><a title="Bio.Std._check_attrs" class="py-name" href="#" onclick="return doclink('link-496', '_check_attrs', 'link-87');">_check_attrs</a></tt><tt class="py-op">(</tt><tt id="link-497" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-497', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L437"></a><tt class="py-lineno">437</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt id="link-498" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-498', 'Group', 'link-1');">Group</a></tt><tt class="py-op">(</tt><tt class="py-string">"bioformat:hsp_seqalign_subject_seq"</tt><tt class="py-op">,</tt> <tt class="py-name">expr</tt><tt class="py-op">,</tt> <tt id="link-499" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-499', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">)</tt> </tt>
</div><a name="L438"></a><tt class="py-lineno">438</tt> <tt class="py-line"> </tt>
<a name="hsp_seqalign_query_leader"></a><div id="hsp_seqalign_query_leader-def"><a name="L439"></a><tt class="py-lineno">439</tt> <a class="py-toggle" href="#" id="hsp_seqalign_query_leader-toggle" onclick="return toggle('hsp_seqalign_query_leader');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#hsp_seqalign_query_leader">hsp_seqalign_query_leader</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">attrs</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="hsp_seqalign_query_leader-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="hsp_seqalign_query_leader-expanded"><a name="L440"></a><tt class="py-lineno">440</tt> <tt class="py-line"> <tt id="link-500" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-500', 'attrs', 'link-9');">attrs</a></tt> <tt class="py-op">=</tt> <tt id="link-501" class="py-name"><a title="Bio.Std._check_attrs" class="py-name" href="#" onclick="return doclink('link-501', '_check_attrs', 'link-87');">_check_attrs</a></tt><tt class="py-op">(</tt><tt id="link-502" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-502', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L441"></a><tt class="py-lineno">441</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt id="link-503" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-503', 'Group', 'link-1');">Group</a></tt><tt class="py-op">(</tt><tt class="py-string">"bioformat:hsp_seqalign_query_leader"</tt><tt class="py-op">,</tt> <tt class="py-name">expr</tt><tt class="py-op">,</tt> <tt id="link-504" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-504', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">)</tt> </tt>
</div><a name="L442"></a><tt class="py-lineno">442</tt> <tt class="py-line"> </tt>
<a name="L443"></a><tt class="py-lineno">443</tt> <tt class="py-line"> </tt>
<a name="hsp_seqalign_query_name"></a><div id="hsp_seqalign_query_name-def"><a name="L444"></a><tt class="py-lineno">444</tt> <a class="py-toggle" href="#" id="hsp_seqalign_query_name-toggle" onclick="return toggle('hsp_seqalign_query_name');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#hsp_seqalign_query_name">hsp_seqalign_query_name</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">attrs</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="hsp_seqalign_query_name-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="hsp_seqalign_query_name-expanded"><a name="L445"></a><tt class="py-lineno">445</tt> <tt class="py-line"> <tt id="link-505" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-505', 'attrs', 'link-9');">attrs</a></tt> <tt class="py-op">=</tt> <tt id="link-506" class="py-name"><a title="Bio.Std._check_attrs" class="py-name" href="#" onclick="return doclink('link-506', '_check_attrs', 'link-87');">_check_attrs</a></tt><tt class="py-op">(</tt><tt id="link-507" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-507', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L446"></a><tt class="py-lineno">446</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt id="link-508" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-508', 'Group', 'link-1');">Group</a></tt><tt class="py-op">(</tt><tt class="py-string">"bioformat:hsp_seqalign_query_name"</tt><tt class="py-op">,</tt> <tt class="py-name">expr</tt><tt class="py-op">,</tt> <tt id="link-509" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-509', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">)</tt> </tt>
</div><a name="L447"></a><tt class="py-lineno">447</tt> <tt class="py-line"> </tt>
<a name="hsp_seqalign_subject_name"></a><div id="hsp_seqalign_subject_name-def"><a name="L448"></a><tt class="py-lineno">448</tt> <a class="py-toggle" href="#" id="hsp_seqalign_subject_name-toggle" onclick="return toggle('hsp_seqalign_subject_name');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#hsp_seqalign_subject_name">hsp_seqalign_subject_name</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">attrs</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="hsp_seqalign_subject_name-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="hsp_seqalign_subject_name-expanded"><a name="L449"></a><tt class="py-lineno">449</tt> <tt class="py-line"> <tt id="link-510" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-510', 'attrs', 'link-9');">attrs</a></tt> <tt class="py-op">=</tt> <tt id="link-511" class="py-name"><a title="Bio.Std._check_attrs" class="py-name" href="#" onclick="return doclink('link-511', '_check_attrs', 'link-87');">_check_attrs</a></tt><tt class="py-op">(</tt><tt id="link-512" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-512', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L450"></a><tt class="py-lineno">450</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt id="link-513" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-513', 'Group', 'link-1');">Group</a></tt><tt class="py-op">(</tt><tt class="py-string">"bioformat:hsp_seqalign_subject_name"</tt><tt class="py-op">,</tt> <tt class="py-name">expr</tt><tt class="py-op">,</tt> <tt id="link-514" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-514', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">)</tt> </tt>
</div><a name="L451"></a><tt class="py-lineno">451</tt> <tt class="py-line"> </tt>
<a name="hsp_seqalign"></a><div id="hsp_seqalign-def"><a name="L452"></a><tt class="py-lineno">452</tt> <a class="py-toggle" href="#" id="hsp_seqalign-toggle" onclick="return toggle('hsp_seqalign');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#hsp_seqalign">hsp_seqalign</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">attrs</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="hsp_seqalign-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="hsp_seqalign-expanded"><a name="L453"></a><tt class="py-lineno">453</tt> <tt class="py-line"> <tt id="link-515" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-515', 'attrs', 'link-9');">attrs</a></tt> <tt class="py-op">=</tt> <tt id="link-516" class="py-name"><a title="Bio.Std._check_attrs" class="py-name" href="#" onclick="return doclink('link-516', '_check_attrs', 'link-87');">_check_attrs</a></tt><tt class="py-op">(</tt><tt id="link-517" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-517', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L454"></a><tt class="py-lineno">454</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt id="link-518" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-518', 'Group', 'link-1');">Group</a></tt><tt class="py-op">(</tt><tt class="py-string">"bioformat:hsp_seqalign"</tt><tt class="py-op">,</tt> <tt class="py-name">expr</tt><tt class="py-op">,</tt> <tt id="link-519" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-519', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">)</tt> </tt>
</div><a name="L455"></a><tt class="py-lineno">455</tt> <tt class="py-line"> </tt>
<a name="hsp_seqalign_query_start"></a><div id="hsp_seqalign_query_start-def"><a name="L456"></a><tt class="py-lineno">456</tt> <a class="py-toggle" href="#" id="hsp_seqalign_query_start-toggle" onclick="return toggle('hsp_seqalign_query_start');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#hsp_seqalign_query_start">hsp_seqalign_query_start</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">attrs</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="hsp_seqalign_query_start-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="hsp_seqalign_query_start-expanded"><a name="L457"></a><tt class="py-lineno">457</tt> <tt class="py-line"> <tt id="link-520" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-520', 'attrs', 'link-9');">attrs</a></tt> <tt class="py-op">=</tt> <tt id="link-521" class="py-name"><a title="Bio.Std._check_attrs" class="py-name" href="#" onclick="return doclink('link-521', '_check_attrs', 'link-87');">_check_attrs</a></tt><tt class="py-op">(</tt><tt id="link-522" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-522', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L458"></a><tt class="py-lineno">458</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt id="link-523" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-523', 'Group', 'link-1');">Group</a></tt><tt class="py-op">(</tt><tt class="py-string">"bioformat:hsp_seqalign_query_start"</tt><tt class="py-op">,</tt> <tt class="py-name">expr</tt><tt class="py-op">,</tt> <tt id="link-524" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-524', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">)</tt> </tt>
</div><a name="L459"></a><tt class="py-lineno">459</tt> <tt class="py-line"> </tt>
<a name="hsp_seqalign_query_end"></a><div id="hsp_seqalign_query_end-def"><a name="L460"></a><tt class="py-lineno">460</tt> <a class="py-toggle" href="#" id="hsp_seqalign_query_end-toggle" onclick="return toggle('hsp_seqalign_query_end');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#hsp_seqalign_query_end">hsp_seqalign_query_end</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">attrs</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="hsp_seqalign_query_end-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="hsp_seqalign_query_end-expanded"><a name="L461"></a><tt class="py-lineno">461</tt> <tt class="py-line"> <tt id="link-525" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-525', 'attrs', 'link-9');">attrs</a></tt> <tt class="py-op">=</tt> <tt id="link-526" class="py-name"><a title="Bio.Std._check_attrs" class="py-name" href="#" onclick="return doclink('link-526', '_check_attrs', 'link-87');">_check_attrs</a></tt><tt class="py-op">(</tt><tt id="link-527" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-527', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L462"></a><tt class="py-lineno">462</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt id="link-528" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-528', 'Group', 'link-1');">Group</a></tt><tt class="py-op">(</tt><tt class="py-string">"bioformat:hsp_seqalign_query_end"</tt><tt class="py-op">,</tt> <tt class="py-name">expr</tt><tt class="py-op">,</tt> <tt id="link-529" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-529', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">)</tt> </tt>
</div><a name="L463"></a><tt class="py-lineno">463</tt> <tt class="py-line"> </tt>
<a name="hsp_seqalign_subject_start"></a><div id="hsp_seqalign_subject_start-def"><a name="L464"></a><tt class="py-lineno">464</tt> <a class="py-toggle" href="#" id="hsp_seqalign_subject_start-toggle" onclick="return toggle('hsp_seqalign_subject_start');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#hsp_seqalign_subject_start">hsp_seqalign_subject_start</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">attrs</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="hsp_seqalign_subject_start-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="hsp_seqalign_subject_start-expanded"><a name="L465"></a><tt class="py-lineno">465</tt> <tt class="py-line"> <tt id="link-530" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-530', 'attrs', 'link-9');">attrs</a></tt> <tt class="py-op">=</tt> <tt id="link-531" class="py-name"><a title="Bio.Std._check_attrs" class="py-name" href="#" onclick="return doclink('link-531', '_check_attrs', 'link-87');">_check_attrs</a></tt><tt class="py-op">(</tt><tt id="link-532" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-532', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L466"></a><tt class="py-lineno">466</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt id="link-533" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-533', 'Group', 'link-1');">Group</a></tt><tt class="py-op">(</tt><tt class="py-string">"bioformat:hsp_seqalign_subject_start"</tt><tt class="py-op">,</tt> <tt class="py-name">expr</tt><tt class="py-op">,</tt> <tt id="link-534" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-534', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">)</tt> </tt>
</div><a name="L467"></a><tt class="py-lineno">467</tt> <tt class="py-line"> </tt>
<a name="hsp_seqalign_subject_end"></a><div id="hsp_seqalign_subject_end-def"><a name="L468"></a><tt class="py-lineno">468</tt> <a class="py-toggle" href="#" id="hsp_seqalign_subject_end-toggle" onclick="return toggle('hsp_seqalign_subject_end');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#hsp_seqalign_subject_end">hsp_seqalign_subject_end</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">attrs</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="hsp_seqalign_subject_end-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="hsp_seqalign_subject_end-expanded"><a name="L469"></a><tt class="py-lineno">469</tt> <tt class="py-line"> <tt id="link-535" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-535', 'attrs', 'link-9');">attrs</a></tt> <tt class="py-op">=</tt> <tt id="link-536" class="py-name"><a title="Bio.Std._check_attrs" class="py-name" href="#" onclick="return doclink('link-536', '_check_attrs', 'link-87');">_check_attrs</a></tt><tt class="py-op">(</tt><tt id="link-537" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-537', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L470"></a><tt class="py-lineno">470</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt id="link-538" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-538', 'Group', 'link-1');">Group</a></tt><tt class="py-op">(</tt><tt class="py-string">"bioformat:hsp_seqalign_subject_end"</tt><tt class="py-op">,</tt> <tt class="py-name">expr</tt><tt class="py-op">,</tt> <tt id="link-539" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-539', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">)</tt> </tt>
</div><a name="L471"></a><tt class="py-lineno">471</tt> <tt class="py-line"> </tt>
<a name="search_parameter"></a><div id="search_parameter-def"><a name="L472"></a><tt class="py-lineno">472</tt> <a class="py-toggle" href="#" id="search_parameter-toggle" onclick="return toggle('search_parameter');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#search_parameter">search_parameter</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">attrs</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="search_parameter-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="search_parameter-expanded"><a name="L473"></a><tt class="py-lineno">473</tt> <tt class="py-line"> <tt id="link-540" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-540', 'attrs', 'link-9');">attrs</a></tt> <tt class="py-op">=</tt> <tt id="link-541" class="py-name"><a title="Bio.Std._check_attrs" class="py-name" href="#" onclick="return doclink('link-541', '_check_attrs', 'link-87');">_check_attrs</a></tt><tt class="py-op">(</tt><tt id="link-542" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-542', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-string">"name"</tt><tt class="py-op">,</tt> <tt class="py-string">"bioformat:decode"</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L474"></a><tt class="py-lineno">474</tt> <tt class="py-line"> <tt id="link-543" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-543', 'd', 'link-14');">d</a></tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt> </tt>
<a name="L475"></a><tt class="py-lineno">475</tt> <tt class="py-line"> <tt id="link-544" class="py-name"><a title="Bio.Std._set_if_given" class="py-name" href="#" onclick="return doclink('link-544', '_set_if_given', 'link-91');">_set_if_given</a></tt><tt class="py-op">(</tt><tt id="link-545" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-545', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-string">"name"</tt><tt class="py-op">,</tt> <tt id="link-546" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-546', 'd', 'link-14');">d</a></tt><tt class="py-op">)</tt> </tt>
<a name="L476"></a><tt class="py-lineno">476</tt> <tt class="py-line"> <tt id="link-547" class="py-name"><a title="Bio.Std._set_if_given" class="py-name" href="#" onclick="return doclink('link-547', '_set_if_given', 'link-91');">_set_if_given</a></tt><tt class="py-op">(</tt><tt id="link-548" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-548', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-string">"bioformat:decode"</tt><tt class="py-op">,</tt> <tt id="link-549" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-549', 'd', 'link-14');">d</a></tt><tt class="py-op">)</tt> </tt>
<a name="L477"></a><tt class="py-lineno">477</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt id="link-550" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-550', 'Group', 'link-1');">Group</a></tt><tt class="py-op">(</tt><tt class="py-string">"bioformat:search_parameter"</tt><tt class="py-op">,</tt> <tt class="py-name">expr</tt><tt class="py-op">,</tt> <tt id="link-551" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-551', 'd', 'link-14');">d</a></tt><tt class="py-op">)</tt> </tt>
</div><a name="L478"></a><tt class="py-lineno">478</tt> <tt class="py-line"> </tt>
<a name="search_statistic"></a><div id="search_statistic-def"><a name="L479"></a><tt class="py-lineno">479</tt> <a class="py-toggle" href="#" id="search_statistic-toggle" onclick="return toggle('search_statistic');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.Std-module.html#search_statistic">search_statistic</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">,</tt> <tt class="py-param">attrs</tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="search_statistic-collapsed" style="display:none;" pad="+++" indent="++++"></div><div id="search_statistic-expanded"><a name="L480"></a><tt class="py-lineno">480</tt> <tt class="py-line"> <tt id="link-552" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-552', 'attrs', 'link-9');">attrs</a></tt> <tt class="py-op">=</tt> <tt id="link-553" class="py-name"><a title="Bio.Std._check_attrs" class="py-name" href="#" onclick="return doclink('link-553', '_check_attrs', 'link-87');">_check_attrs</a></tt><tt class="py-op">(</tt><tt id="link-554" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-554', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-op">(</tt><tt class="py-string">"name"</tt><tt class="py-op">,</tt> <tt class="py-string">"bioformat:decode"</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L481"></a><tt class="py-lineno">481</tt> <tt class="py-line"> <tt id="link-555" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-555', 'd', 'link-14');">d</a></tt> <tt class="py-op">=</tt> <tt class="py-op">{</tt><tt class="py-op">}</tt> </tt>
<a name="L482"></a><tt class="py-lineno">482</tt> <tt class="py-line"> <tt id="link-556" class="py-name"><a title="Bio.Std._set_if_given" class="py-name" href="#" onclick="return doclink('link-556', '_set_if_given', 'link-91');">_set_if_given</a></tt><tt class="py-op">(</tt><tt id="link-557" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-557', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-string">"name"</tt><tt class="py-op">,</tt> <tt id="link-558" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-558', 'd', 'link-14');">d</a></tt><tt class="py-op">)</tt> </tt>
<a name="L483"></a><tt class="py-lineno">483</tt> <tt class="py-line"> <tt id="link-559" class="py-name"><a title="Bio.Std._set_if_given" class="py-name" href="#" onclick="return doclink('link-559', '_set_if_given', 'link-91');">_set_if_given</a></tt><tt class="py-op">(</tt><tt id="link-560" class="py-name"><a title="Martel.Time.attrs" class="py-name" href="#" onclick="return doclink('link-560', 'attrs', 'link-9');">attrs</a></tt><tt class="py-op">,</tt> <tt class="py-string">"bioformat:decode"</tt><tt class="py-op">,</tt> <tt id="link-561" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-561', 'd', 'link-14');">d</a></tt><tt class="py-op">)</tt> </tt>
<a name="L484"></a><tt class="py-lineno">484</tt> <tt class="py-line"> <tt class="py-keyword">return</tt> <tt id="link-562" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-562', 'Group', 'link-1');">Group</a></tt><tt class="py-op">(</tt><tt class="py-string">"bioformat:search_statistic"</tt><tt class="py-op">,</tt> <tt class="py-name">expr</tt><tt class="py-op">,</tt> <tt id="link-563" class="py-name"><a title="Bio.EUtils.setup.d" class="py-name" href="#" onclick="return doclink('link-563', 'd', 'link-14');">d</a></tt><tt class="py-op">)</tt> </tt>
</div><a name="L485"></a><tt class="py-lineno">485</tt> <tt class="py-line"> </tt><script type="text/javascript">
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