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biopython-doc-1.47-2mdv2008.1.x86_64.rpm

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<h1 class="epydoc">Source Code for <a href="Bio.expressions.swissprot.speclist-module.html">Module Bio.expressions.swissprot.speclist</a></h1>
<pre class="py-src">
<a name="L1"></a><tt class="py-lineno"> 1</tt>  <tt class="py-line"><tt class="py-docstring">"""Parser for the SPECLIST.TXT file in SWISS-PROT.</tt> </tt>
<a name="L2"></a><tt class="py-lineno"> 2</tt>  <tt class="py-line"><tt class="py-docstring"></tt> </tt>
<a name="L3"></a><tt class="py-lineno"> 3</tt>  <tt class="py-line"><tt class="py-docstring">You probably want to use the variables 'record' (for a single record)</tt> </tt>
<a name="L4"></a><tt class="py-lineno"> 4</tt>  <tt class="py-line"><tt class="py-docstring">and 'format' (for a set of records).</tt> </tt>
<a name="L5"></a><tt class="py-lineno"> 5</tt>  <tt class="py-line"><tt class="py-docstring"></tt> </tt>
<a name="L6"></a><tt class="py-lineno"> 6</tt>  <tt class="py-line"><tt class="py-docstring">"""</tt> </tt>
<a name="L7"></a><tt class="py-lineno"> 7</tt>  <tt class="py-line"> </tt>
<a name="L8"></a><tt class="py-lineno"> 8</tt>  <tt class="py-line"><tt class="py-keyword">import</tt> <tt class="py-name">warnings</tt> </tt>
<a name="L9"></a><tt class="py-lineno"> 9</tt>  <tt class="py-line"><tt class="py-name">warnings</tt><tt class="py-op">.</tt><tt class="py-name">warn</tt><tt class="py-op">(</tt><tt class="py-string">"Bio.expressions was deprecated, as it does not work with recent versions of mxTextTools. If you want to continue to use this module, please get in contact with the Biopython developers at biopython-dev@biopython.org to avoid permanent removal of this module from Biopython"</tt><tt class="py-op">,</tt> <tt class="py-name">DeprecationWarning</tt><tt class="py-op">)</tt> </tt>
<a name="L10"></a><tt class="py-lineno">10</tt>  <tt class="py-line"> </tt>
<a name="L11"></a><tt class="py-lineno">11</tt>  <tt class="py-line"> </tt>
<a name="L12"></a><tt class="py-lineno">12</tt>  <tt class="py-line"><tt class="py-keyword">from</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 class="py-keyword">import</tt> <tt class="py-op">*</tt> </tt>
<a name="L13"></a><tt class="py-lineno">13</tt>  <tt class="py-line"> </tt>
<a name="L14"></a><tt class="py-lineno">14</tt>  <tt class="py-line"> </tt>
<a name="SkipLinesToNoEOL"></a><div id="SkipLinesToNoEOL-def"><a name="L15"></a><tt class="py-lineno">15</tt> <a class="py-toggle" href="#" id="SkipLinesToNoEOL-toggle" onclick="return toggle('SkipLinesToNoEOL');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.expressions.swissprot.speclist-module.html#SkipLinesToNoEOL">SkipLinesToNoEOL</a><tt class="py-op">(</tt><tt class="py-param">expr</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="SkipLinesToNoEOL-collapsed" style="display:none;" pad="++" indent="++++"></div><div id="SkipLinesToNoEOL-expanded"><a name="L16"></a><tt class="py-lineno">16</tt>  <tt class="py-line">    <tt class="py-keyword">return</tt> <tt id="link-1" class="py-name" targets="Package Bio.Pathway.Rep=Bio.Pathway.Rep-module.html,Function Martel.Rep()=Martel-module.html#Rep"><a title="Bio.Pathway.Rep
Martel.Rep" class="py-name" href="#" onclick="return doclink('link-1', 'Rep', 'link-1');">Rep</a></tt><tt class="py-op">(</tt><tt id="link-2" class="py-name" targets="Function Martel.AssertNot()=Martel-module.html#AssertNot"><a title="Martel.AssertNot" class="py-name" href="#" onclick="return doclink('link-2', 'AssertNot', 'link-2');">AssertNot</a></tt><tt class="py-op">(</tt><tt class="py-name">expr</tt><tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt id="link-3" class="py-name" targets="Function Martel.ToEol()=Martel-module.html#ToEol"><a title="Martel.ToEol" class="py-name" href="#" onclick="return doclink('link-3', 'ToEol', 'link-3');">ToEol</a></tt><tt class="py-op">(</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt class="py-name">expr</tt> </tt>
</div><a name="L17"></a><tt class="py-lineno">17</tt>  <tt class="py-line">     </tt>
<a name="L18"></a><tt class="py-lineno">18</tt>  <tt class="py-line"> </tt>
<a name="L19"></a><tt class="py-lineno">19</tt>  <tt class="py-line"> </tt>
<a name="L20"></a><tt class="py-lineno">20</tt>  <tt class="py-line"><tt id="link-4" class="py-name" targets="Variable Bio.expressions.swissprot.speclist.DESCRIPTION=Bio.expressions.swissprot.speclist-module.html#DESCRIPTION"><a title="Bio.expressions.swissprot.speclist.DESCRIPTION" class="py-name" href="#" onclick="return doclink('link-4', 'DESCRIPTION', 'link-4');">DESCRIPTION</a></tt> <tt class="py-op">=</tt> <tt id="link-5" class="py-name" targets="Class Martel.Expression.Str=Martel.Expression.Str-class.html,Function Martel.Str()=Martel-module.html#Str"><a title="Martel.Expression.Str
Martel.Str" class="py-name" href="#" onclick="return doclink('link-5', 'Str', 'link-5');">Str</a></tt><tt class="py-op">(</tt><tt class="py-string">"Description:"</tt><tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt id="link-6" class="py-name" targets="Function Martel.Spaces()=Martel-module.html#Spaces"><a title="Martel.Spaces" class="py-name" href="#" onclick="return doclink('link-6', 'Spaces', 'link-6');">Spaces</a></tt><tt class="py-op">(</tt><tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt id="link-7" class="py-name" targets="Function Martel.UntilEol()=Martel-module.html#UntilEol"><a title="Martel.UntilEol" class="py-name" href="#" onclick="return doclink('link-7', 'UntilEol', 'link-7');">UntilEol</a></tt><tt class="py-op">(</tt><tt class="py-string">"description"</tt><tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt id="link-8" class="py-name" targets="Class Martel.Expression.AnyEol=Martel.Expression.AnyEol-class.html"><a title="Martel.Expression.AnyEol" class="py-name" href="#" onclick="return doclink('link-8', 'AnyEol', 'link-8');">AnyEol</a></tt><tt class="py-op">(</tt><tt class="py-op">)</tt> </tt>
<a name="L21"></a><tt class="py-lineno">21</tt>  <tt class="py-line"><tt id="link-9" class="py-name" targets="Variable Bio.PDB.MMCIF2Dict.MMCIF2Dict.NAME=Bio.PDB.MMCIF2Dict.MMCIF2Dict-class.html#NAME,Variable Bio.expressions.swissprot.speclist.NAME=Bio.expressions.swissprot.speclist-module.html#NAME"><a title="Bio.PDB.MMCIF2Dict.MMCIF2Dict.NAME
Bio.expressions.swissprot.speclist.NAME" class="py-name" href="#" onclick="return doclink('link-9', 'NAME', 'link-9');">NAME</a></tt> <tt class="py-op">=</tt> <tt id="link-10" class="py-name"><a title="Martel.Expression.Str
Martel.Str" class="py-name" href="#" onclick="return doclink('link-10', 'Str', 'link-5');">Str</a></tt><tt class="py-op">(</tt><tt class="py-string">"Name:"</tt><tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt id="link-11" class="py-name"><a title="Martel.Spaces" class="py-name" href="#" onclick="return doclink('link-11', 'Spaces', 'link-6');">Spaces</a></tt><tt class="py-op">(</tt><tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt id="link-12" class="py-name"><a title="Martel.UntilEol" class="py-name" href="#" onclick="return doclink('link-12', 'UntilEol', 'link-7');">UntilEol</a></tt><tt class="py-op">(</tt><tt class="py-string">"name"</tt><tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt id="link-13" class="py-name"><a title="Martel.Expression.AnyEol" class="py-name" href="#" onclick="return doclink('link-13', 'AnyEol', 'link-8');">AnyEol</a></tt><tt class="py-op">(</tt><tt class="py-op">)</tt> </tt>
<a name="L22"></a><tt class="py-lineno">22</tt>  <tt class="py-line"><tt id="link-14" class="py-name" targets="Variable Bio.expressions.swissprot.speclist.RELEASE=Bio.expressions.swissprot.speclist-module.html#RELEASE"><a title="Bio.expressions.swissprot.speclist.RELEASE" class="py-name" href="#" onclick="return doclink('link-14', 'RELEASE', 'link-14');">RELEASE</a></tt> <tt class="py-op">=</tt> <tt id="link-15" class="py-name"><a title="Martel.Expression.Str
Martel.Str" class="py-name" href="#" onclick="return doclink('link-15', 'Str', 'link-5');">Str</a></tt><tt class="py-op">(</tt><tt class="py-string">"Release:"</tt><tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt id="link-16" class="py-name"><a title="Martel.Spaces" class="py-name" href="#" onclick="return doclink('link-16', 'Spaces', 'link-6');">Spaces</a></tt><tt class="py-op">(</tt><tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt id="link-17" class="py-name"><a title="Martel.UntilEol" class="py-name" href="#" onclick="return doclink('link-17', 'UntilEol', 'link-7');">UntilEol</a></tt><tt class="py-op">(</tt><tt class="py-string">"release"</tt><tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt id="link-18" class="py-name"><a title="Martel.Expression.AnyEol" class="py-name" href="#" onclick="return doclink('link-18', 'AnyEol', 'link-8');">AnyEol</a></tt><tt class="py-op">(</tt><tt class="py-op">)</tt> </tt>
<a name="L23"></a><tt class="py-lineno">23</tt>  <tt class="py-line"> </tt>
<a name="L24"></a><tt class="py-lineno">24</tt>  <tt class="py-line"><tt id="link-19" class="py-name" targets="Variable Bio.expressions.swissprot.speclist.TOTAL_CODES=Bio.expressions.swissprot.speclist-module.html#TOTAL_CODES"><a title="Bio.expressions.swissprot.speclist.TOTAL_CODES" class="py-name" href="#" onclick="return doclink('link-19', 'TOTAL_CODES', 'link-19');">TOTAL_CODES</a></tt> <tt class="py-op">=</tt> <tt id="link-20" class="py-name"><a title="Martel.Expression.Str
Martel.Str" class="py-name" href="#" onclick="return doclink('link-20', 'Str', 'link-5');">Str</a></tt><tt class="py-op">(</tt><tt class="py-string">"Total number of organism identification codes currently defined:"</tt><tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt id="link-21" class="py-name"><a title="Martel.Spaces" class="py-name" href="#" onclick="return doclink('link-21', 'Spaces', 'link-6');">Spaces</a></tt><tt class="py-op">(</tt><tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt id="link-22" class="py-name" targets="Class Bio.Decode.Integer=Bio.Decode.Integer-class.html,Class Bio.GenBank.LocationParser.Integer=Bio.GenBank.LocationParser.Integer-class.html,Function Martel.Integer()=Martel-module.html#Integer"><a title="Bio.Decode.Integer
Bio.GenBank.LocationParser.Integer
Martel.Integer" class="py-name" href="#" onclick="return doclink('link-22', 'Integer', 'link-22');">Integer</a></tt><tt class="py-op">(</tt><tt class="py-string">"num_organism_codes"</tt><tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt id="link-23" class="py-name"><a title="Martel.Expression.Str
Martel.Str" class="py-name" href="#" onclick="return doclink('link-23', 'Str', 'link-5');">Str</a></tt><tt class="py-op">(</tt><tt class="py-string">"."</tt><tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt id="link-24" class="py-name"><a title="Martel.Expression.AnyEol" class="py-name" href="#" onclick="return doclink('link-24', 'AnyEol', 'link-8');">AnyEol</a></tt><tt class="py-op">(</tt><tt class="py-op">)</tt> </tt>
<a name="L25"></a><tt class="py-lineno">25</tt>  <tt class="py-line"> </tt>
<a name="L26"></a><tt class="py-lineno">26</tt>  <tt class="py-line"><tt id="link-25" class="py-name" targets="Variable Bio.expressions.swissprot.speclist.TABLE_HEADER=Bio.expressions.swissprot.speclist-module.html#TABLE_HEADER"><a title="Bio.expressions.swissprot.speclist.TABLE_HEADER" class="py-name" href="#" onclick="return doclink('link-25', 'TABLE_HEADER', 'link-25');">TABLE_HEADER</a></tt> <tt class="py-op">=</tt> <tt id="link-26" 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-26', 'Group', 'link-26');">Group</a></tt><tt class="py-op">(</tt><tt class="py-string">"table_header"</tt><tt class="py-op">,</tt> </tt>
<a name="L27"></a><tt class="py-lineno">27</tt>  <tt class="py-line">                     <tt id="link-27" class="py-name"><a title="Martel.Expression.Str
Martel.Str" class="py-name" href="#" onclick="return doclink('link-27', 'Str', 'link-5');">Str</a></tt><tt class="py-op">(</tt><tt class="py-string">"Code"</tt><tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt id="link-28" class="py-name"><a title="Martel.Spaces" class="py-name" href="#" onclick="return doclink('link-28', 'Spaces', 'link-6');">Spaces</a></tt><tt class="py-op">(</tt><tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt id="link-29" class="py-name"><a title="Martel.Expression.Str
Martel.Str" class="py-name" href="#" onclick="return doclink('link-29', 'Str', 'link-5');">Str</a></tt><tt class="py-op">(</tt><tt class="py-string">"Taxon"</tt><tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt id="link-30" class="py-name"><a title="Martel.Spaces" class="py-name" href="#" onclick="return doclink('link-30', 'Spaces', 'link-6');">Spaces</a></tt><tt class="py-op">(</tt><tt class="py-op">)</tt> <tt class="py-op">+</tt> </tt>
<a name="L28"></a><tt class="py-lineno">28</tt>  <tt class="py-line">                     <tt id="link-31" class="py-name"><a title="Martel.Expression.Str
Martel.Str" class="py-name" href="#" onclick="return doclink('link-31', 'Str', 'link-5');">Str</a></tt><tt class="py-op">(</tt><tt class="py-string">"N=Official name"</tt><tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt id="link-32" class="py-name"><a title="Martel.ToEol" class="py-name" href="#" onclick="return doclink('link-32', 'ToEol', 'link-3');">ToEol</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 id="link-33" class="py-name"><a title="Martel.Spaces" class="py-name" href="#" onclick="return doclink('link-33', 'Spaces', 'link-6');">Spaces</a></tt><tt class="py-op">(</tt><tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt id="link-34" class="py-name"><a title="Martel.Expression.Str
Martel.Str" class="py-name" href="#" onclick="return doclink('link-34', 'Str', 'link-5');">Str</a></tt><tt class="py-op">(</tt><tt class="py-string">"Node"</tt><tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt id="link-35" class="py-name"><a title="Martel.Spaces" class="py-name" href="#" onclick="return doclink('link-35', 'Spaces', 'link-6');">Spaces</a></tt><tt class="py-op">(</tt><tt class="py-op">)</tt> <tt class="py-op">+</tt> </tt>
<a name="L30"></a><tt class="py-lineno">30</tt>  <tt class="py-line">                     <tt id="link-36" class="py-name"><a title="Martel.Expression.Str
Martel.Str" class="py-name" href="#" onclick="return doclink('link-36', 'Str', 'link-5');">Str</a></tt><tt class="py-op">(</tt><tt class="py-string">"C=Common name"</tt><tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt id="link-37" class="py-name"><a title="Martel.ToEol" class="py-name" href="#" onclick="return doclink('link-37', 'ToEol', 'link-3');">ToEol</a></tt><tt class="py-op">(</tt><tt class="py-op">)</tt> <tt class="py-op">+</tt> </tt>
<a name="L31"></a><tt class="py-lineno">31</tt>  <tt class="py-line">                     <tt id="link-38" class="py-name"><a title="Martel.Spaces" class="py-name" href="#" onclick="return doclink('link-38', 'Spaces', 'link-6');">Spaces</a></tt><tt class="py-op">(</tt><tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt id="link-39" class="py-name"><a title="Martel.Expression.Str
Martel.Str" class="py-name" href="#" onclick="return doclink('link-39', 'Str', 'link-5');">Str</a></tt><tt class="py-op">(</tt><tt class="py-string">"S=Synonym"</tt><tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt id="link-40" class="py-name"><a title="Martel.ToEol" class="py-name" href="#" onclick="return doclink('link-40', 'ToEol', 'link-3');">ToEol</a></tt><tt class="py-op">(</tt><tt class="py-op">)</tt> <tt class="py-op">+</tt> </tt>
<a name="L32"></a><tt class="py-lineno">32</tt>  <tt class="py-line">                     <tt id="link-41" class="py-name" targets="Function Martel.Rep1()=Martel-module.html#Rep1"><a title="Martel.Rep1" class="py-name" href="#" onclick="return doclink('link-41', 'Rep1', 'link-41');">Rep1</a></tt><tt class="py-op">(</tt><tt id="link-42" class="py-name" targets="Function Martel.Any()=Martel-module.html#Any,Class Martel.Expression.Any=Martel.Expression.Any-class.html"><a title="Martel.Any
Martel.Expression.Any" class="py-name" href="#" onclick="return doclink('link-42', 'Any', 'link-42');">Any</a></tt><tt class="py-op">(</tt><tt class="py-string">" _"</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt id="link-43" class="py-name"><a title="Martel.Expression.AnyEol" class="py-name" href="#" onclick="return doclink('link-43', 'AnyEol', 'link-8');">AnyEol</a></tt><tt class="py-op">(</tt><tt class="py-op">)</tt> </tt>
<a name="L33"></a><tt class="py-lineno">33</tt>  <tt class="py-line">                     <tt class="py-op">)</tt> </tt>
<a name="L34"></a><tt class="py-lineno">34</tt>  <tt class="py-line"> </tt>
<a name="L35"></a><tt class="py-lineno">35</tt>  <tt class="py-line"><tt id="link-44" class="py-name" targets="Variable Bio.expressions.swissprot.speclist._dash_line=Bio.expressions.swissprot.speclist-module.html#_dash_line"><a title="Bio.expressions.swissprot.speclist._dash_line" class="py-name" href="#" onclick="return doclink('link-44', '_dash_line', 'link-44');">_dash_line</a></tt> <tt class="py-op">=</tt> <tt id="link-45" class="py-name"><a title="Martel.Rep1" class="py-name" href="#" onclick="return doclink('link-45', 'Rep1', 'link-41');">Rep1</a></tt><tt class="py-op">(</tt><tt id="link-46" class="py-name"><a title="Martel.Expression.Str
Martel.Str" class="py-name" href="#" onclick="return doclink('link-46', 'Str', 'link-5');">Str</a></tt><tt class="py-op">(</tt><tt class="py-string">"-"</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt id="link-47" class="py-name"><a title="Martel.Expression.AnyEol" class="py-name" href="#" onclick="return doclink('link-47', 'AnyEol', 'link-8');">AnyEol</a></tt><tt class="py-op">(</tt><tt class="py-op">)</tt> </tt>
<a name="L36"></a><tt class="py-lineno">36</tt>  <tt class="py-line"><tt id="link-48" class="py-name" targets="Variable Bio.expressions.swissprot.speclist.COPYRIGHT=Bio.expressions.swissprot.speclist-module.html#COPYRIGHT"><a title="Bio.expressions.swissprot.speclist.COPYRIGHT" class="py-name" href="#" onclick="return doclink('link-48', 'COPYRIGHT', 'link-48');">COPYRIGHT</a></tt> <tt class="py-op">=</tt> <tt id="link-49" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-49', 'Group', 'link-26');">Group</a></tt><tt class="py-op">(</tt><tt class="py-string">"copyright"</tt><tt class="py-op">,</tt> </tt>
<a name="L37"></a><tt class="py-lineno">37</tt>  <tt class="py-line">                  <tt id="link-50" class="py-name"><a title="Bio.expressions.swissprot.speclist._dash_line" class="py-name" href="#" onclick="return doclink('link-50', '_dash_line', 'link-44');">_dash_line</a></tt> <tt class="py-op">+</tt> </tt>
<a name="L38"></a><tt class="py-lineno">38</tt>  <tt class="py-line">                  <tt id="link-51" class="py-name"><a title="Martel.Expression.Str
Martel.Str" class="py-name" href="#" onclick="return doclink('link-51', 'Str', 'link-5');">Str</a></tt><tt class="py-op">(</tt><tt class="py-string">"SWISS-PROT is copyright."</tt><tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt id="link-52" class="py-name"><a title="Martel.ToEol" class="py-name" href="#" onclick="return doclink('link-52', 'ToEol', 'link-3');">ToEol</a></tt><tt class="py-op">(</tt><tt class="py-op">)</tt> <tt class="py-op">+</tt> </tt>
<a name="L39"></a><tt class="py-lineno">39</tt>  <tt class="py-line">                  <tt id="link-53" class="py-name" targets="Function Bio.expressions.swissprot.speclist.SkipLinesToNoEOL()=Bio.expressions.swissprot.speclist-module.html#SkipLinesToNoEOL"><a title="Bio.expressions.swissprot.speclist.SkipLinesToNoEOL" class="py-name" href="#" onclick="return doclink('link-53', 'SkipLinesToNoEOL', 'link-53');">SkipLinesToNoEOL</a></tt><tt class="py-op">(</tt><tt id="link-54" class="py-name"><a title="Bio.expressions.swissprot.speclist._dash_line" class="py-name" href="#" onclick="return doclink('link-54', '_dash_line', 'link-44');">_dash_line</a></tt><tt class="py-op">)</tt> <tt class="py-op">+</tt> </tt>
<a name="L40"></a><tt class="py-lineno">40</tt>  <tt class="py-line">                  <tt id="link-55" class="py-name"><a title="Bio.Pathway.Rep
Martel.Rep" class="py-name" href="#" onclick="return doclink('link-55', 'Rep', 'link-1');">Rep</a></tt><tt class="py-op">(</tt><tt id="link-56" class="py-name"><a title="Martel.Expression.AnyEol" class="py-name" href="#" onclick="return doclink('link-56', 'AnyEol', 'link-8');">AnyEol</a></tt><tt class="py-op">(</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L41"></a><tt class="py-lineno">41</tt>  <tt class="py-line">                  <tt class="py-op">)</tt> </tt>
<a name="L42"></a><tt class="py-lineno">42</tt>  <tt class="py-line"> </tt>
<a name="L43"></a><tt class="py-lineno">43</tt>  <tt class="py-line"><tt id="link-57" class="py-name" targets="Variable Bio.expressions.swissprot.speclist._code_line=Bio.expressions.swissprot.speclist-module.html#_code_line"><a title="Bio.expressions.swissprot.speclist._code_line" class="py-name" href="#" onclick="return doclink('link-57', '_code_line', 'link-57');">_code_line</a></tt> <tt class="py-op">=</tt> <tt id="link-58" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-58', 'Group', 'link-26');">Group</a></tt><tt class="py-op">(</tt><tt class="py-string">"code"</tt><tt class="py-op">,</tt> <tt id="link-59" class="py-name" targets="Function Martel.Re()=Martel-module.html#Re"><a title="Martel.Re" class="py-name" href="#" onclick="return doclink('link-59', 'Re', 'link-59');">Re</a></tt><tt class="py-op">(</tt><tt class="py-string">r"[A-Z0-9]{1,5}"</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> <tt class="py-op">+</tt> \ </tt>
<a name="L44"></a><tt class="py-lineno">44</tt>  <tt class="py-line">             <tt id="link-60" class="py-name"><a title="Martel.Spaces" class="py-name" href="#" onclick="return doclink('link-60', 'Spaces', 'link-6');">Spaces</a></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 id="link-61" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-61', 'Group', 'link-26');">Group</a></tt><tt class="py-op">(</tt><tt class="py-string">"kingdom"</tt><tt class="py-op">,</tt> <tt id="link-62" class="py-name"><a title="Martel.Any
Martel.Expression.Any" class="py-name" href="#" onclick="return doclink('link-62', 'Any', 'link-42');">Any</a></tt><tt class="py-op">(</tt><tt class="py-string">"ABEV"</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> <tt class="py-op">+</tt> \ </tt>
<a name="L46"></a><tt class="py-lineno">46</tt>  <tt class="py-line">             <tt id="link-63" class="py-name"><a title="Martel.Spaces" class="py-name" href="#" onclick="return doclink('link-63', 'Spaces', 'link-6');">Spaces</a></tt><tt class="py-op">(</tt><tt class="py-op">)</tt> <tt class="py-op">+</tt> \ </tt>
<a name="L47"></a><tt class="py-lineno">47</tt>  <tt class="py-line">             <tt id="link-64" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-64', 'Group', 'link-26');">Group</a></tt><tt class="py-op">(</tt><tt class="py-string">"taxon_node"</tt><tt class="py-op">,</tt> <tt id="link-65" class="py-name" targets="Function Martel.Digits()=Martel-module.html#Digits"><a title="Martel.Digits" class="py-name" href="#" onclick="return doclink('link-65', 'Digits', 'link-65');">Digits</a></tt><tt class="py-op">(</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt id="link-66" class="py-name"><a title="Martel.Expression.Str
Martel.Str" class="py-name" href="#" onclick="return doclink('link-66', 'Str', 'link-5');">Str</a></tt><tt class="py-op">(</tt><tt class="py-string">":"</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-67" class="py-name"><a title="Martel.Spaces" class="py-name" href="#" onclick="return doclink('link-67', 'Spaces', 'link-6');">Spaces</a></tt><tt class="py-op">(</tt><tt class="py-op">)</tt> <tt class="py-op">+</tt> \ </tt>
<a name="L49"></a><tt class="py-lineno">49</tt>  <tt class="py-line">             <tt id="link-68" class="py-name"><a title="Martel.Expression.Str
Martel.Str" class="py-name" href="#" onclick="return doclink('link-68', 'Str', 'link-5');">Str</a></tt><tt class="py-op">(</tt><tt class="py-string">"N="</tt><tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt id="link-69" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-69', 'Group', 'link-26');">Group</a></tt><tt class="py-op">(</tt><tt class="py-string">"official_name"</tt><tt class="py-op">,</tt> <tt id="link-70" class="py-name"><a title="Martel.UntilEol" class="py-name" href="#" onclick="return doclink('link-70', 'UntilEol', 'link-7');">UntilEol</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="L50"></a><tt class="py-lineno">50</tt>  <tt class="py-line">             <tt id="link-71" class="py-name"><a title="Martel.Expression.AnyEol" class="py-name" href="#" onclick="return doclink('link-71', 'AnyEol', 'link-8');">AnyEol</a></tt><tt class="py-op">(</tt><tt class="py-op">)</tt> </tt>
<a name="L51"></a><tt class="py-lineno">51</tt>  <tt class="py-line"><tt id="link-72" class="py-name" targets="Variable Bio.expressions.swissprot.speclist._common_line=Bio.expressions.swissprot.speclist-module.html#_common_line"><a title="Bio.expressions.swissprot.speclist._common_line" class="py-name" href="#" onclick="return doclink('link-72', '_common_line', 'link-72');">_common_line</a></tt> <tt class="py-op">=</tt> <tt id="link-73" class="py-name"><a title="Martel.Spaces" class="py-name" href="#" onclick="return doclink('link-73', 'Spaces', 'link-6');">Spaces</a></tt><tt class="py-op">(</tt><tt class="py-op">)</tt> <tt class="py-op">+</tt> \ </tt>
<a name="L52"></a><tt class="py-lineno">52</tt>  <tt class="py-line">               <tt id="link-74" class="py-name"><a title="Martel.Expression.Str
Martel.Str" class="py-name" href="#" onclick="return doclink('link-74', 'Str', 'link-5');">Str</a></tt><tt class="py-op">(</tt><tt class="py-string">"C="</tt><tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt id="link-75" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-75', 'Group', 'link-26');">Group</a></tt><tt class="py-op">(</tt><tt class="py-string">"common_name"</tt><tt class="py-op">,</tt> <tt id="link-76" class="py-name"><a title="Martel.UntilEol" class="py-name" href="#" onclick="return doclink('link-76', 'UntilEol', 'link-7');">UntilEol</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="L53"></a><tt class="py-lineno">53</tt>  <tt class="py-line">               <tt id="link-77" class="py-name"><a title="Martel.Expression.AnyEol" class="py-name" href="#" onclick="return doclink('link-77', 'AnyEol', 'link-8');">AnyEol</a></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 id="link-78" class="py-name" targets="Variable Bio.expressions.swissprot.speclist._synonym_line=Bio.expressions.swissprot.speclist-module.html#_synonym_line"><a title="Bio.expressions.swissprot.speclist._synonym_line" class="py-name" href="#" onclick="return doclink('link-78', '_synonym_line', 'link-78');">_synonym_line</a></tt> <tt class="py-op">=</tt> <tt id="link-79" class="py-name"><a title="Martel.Spaces" class="py-name" href="#" onclick="return doclink('link-79', 'Spaces', 'link-6');">Spaces</a></tt><tt class="py-op">(</tt><tt class="py-op">)</tt> <tt class="py-op">+</tt> \ </tt>
<a name="L55"></a><tt class="py-lineno">55</tt>  <tt class="py-line">                <tt id="link-80" class="py-name"><a title="Martel.Expression.Str
Martel.Str" class="py-name" href="#" onclick="return doclink('link-80', 'Str', 'link-5');">Str</a></tt><tt class="py-op">(</tt><tt class="py-string">"S="</tt><tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt id="link-81" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-81', 'Group', 'link-26');">Group</a></tt><tt class="py-op">(</tt><tt class="py-string">"synonym"</tt><tt class="py-op">,</tt> <tt id="link-82" class="py-name"><a title="Martel.UntilEol" class="py-name" href="#" onclick="return doclink('link-82', 'UntilEol', 'link-7');">UntilEol</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="L56"></a><tt class="py-lineno">56</tt>  <tt class="py-line">                <tt id="link-83" class="py-name"><a title="Martel.Expression.AnyEol" class="py-name" href="#" onclick="return doclink('link-83', 'AnyEol', 'link-8');">AnyEol</a></tt><tt class="py-op">(</tt><tt class="py-op">)</tt> </tt>
<a name="L57"></a><tt class="py-lineno">57</tt>  <tt class="py-line"><tt id="link-84" 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-84', 'record', 'link-84');">record</a></tt> <tt class="py-op">=</tt> <tt id="link-85" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-85', 'Group', 'link-26');">Group</a></tt><tt class="py-op">(</tt><tt class="py-string">"record"</tt><tt class="py-op">,</tt> </tt>
<a name="L58"></a><tt class="py-lineno">58</tt>  <tt class="py-line">               <tt id="link-86" class="py-name"><a title="Bio.expressions.swissprot.speclist._code_line" class="py-name" href="#" onclick="return doclink('link-86', '_code_line', 'link-57');">_code_line</a></tt> <tt class="py-op">+</tt> <tt id="link-87" class="py-name"><a title="Bio.Pathway.Rep
Martel.Rep" class="py-name" href="#" onclick="return doclink('link-87', 'Rep', 'link-1');">Rep</a></tt><tt class="py-op">(</tt><tt id="link-88" class="py-name"><a title="Bio.expressions.swissprot.speclist._common_line" class="py-name" href="#" onclick="return doclink('link-88', '_common_line', 'link-72');">_common_line</a></tt><tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt id="link-89" class="py-name"><a title="Bio.Pathway.Rep
Martel.Rep" class="py-name" href="#" onclick="return doclink('link-89', 'Rep', 'link-1');">Rep</a></tt><tt class="py-op">(</tt><tt id="link-90" class="py-name"><a title="Bio.expressions.swissprot.speclist._synonym_line" class="py-name" href="#" onclick="return doclink('link-90', '_synonym_line', 'link-78');">_synonym_line</a></tt><tt class="py-op">)</tt> </tt>
<a name="L59"></a><tt class="py-lineno">59</tt>  <tt class="py-line">               <tt class="py-op">)</tt> </tt>
<a name="L60"></a><tt class="py-lineno">60</tt>  <tt class="py-line"> </tt>
<a name="L61"></a><tt class="py-lineno">61</tt>  <tt class="py-line"><tt id="link-91" class="py-name" targets="Method Bio.Restriction.Restriction.RestrictionBatch.format()=Bio.Restriction.Restriction.RestrictionBatch-class.html#format,Variable Bio.expressions.blast.ncbiblast.format=Bio.expressions.blast.ncbiblast-module.html#format,Variable Bio.expressions.blast.wublast.format=Bio.expressions.blast.wublast-module.html#format,Variable Bio.expressions.blocks.format=Bio.expressions.blocks-module.html#format,Variable Bio.expressions.embl.embl65.format=Bio.expressions.embl.embl65-module.html#format,Variable Bio.expressions.fasta.format=Bio.expressions.fasta-module.html#format,Variable Bio.expressions.genbank.format=Bio.expressions.genbank-module.html#format,Variable Bio.expressions.hmmpfam.format=Bio.expressions.hmmpfam-module.html#format,Variable Bio.expressions.swissprot.ipi.format=Bio.expressions.swissprot.ipi-module.html#format,Variable Bio.expressions.swissprot.speclist.format=Bio.expressions.swissprot.speclist-module.html#format,Variable Bio.expressions.swissprot.sprot38.format=Bio.expressions.swissprot.sprot38-module.html#format,Variable Bio.expressions.swissprot.sprot40.format=Bio.expressions.swissprot.sprot40-module.html#format,Variable Bio.expressions.transfac.format=Bio.expressions.transfac-module.html#format,Variable Martel.test.test_swissprot38.format=Martel.test.test_swissprot38-module.html#format,Variable Martel.test.testformats.swissprot38.format=Martel.test.testformats.swissprot38-module.html#format"><a title="Bio.Restriction.Restriction.RestrictionBatch.format
Bio.expressions.blast.ncbiblast.format
Bio.expressions.blast.wublast.format
Bio.expressions.blocks.format
Bio.expressions.embl.embl65.format
Bio.expressions.fasta.format
Bio.expressions.genbank.format
Bio.expressions.hmmpfam.format
Bio.expressions.swissprot.ipi.format
Bio.expressions.swissprot.speclist.format
Bio.expressions.swissprot.sprot38.format
Bio.expressions.swissprot.sprot40.format
Bio.expressions.transfac.format
Martel.test.test_swissprot38.format
Martel.test.testformats.swissprot38.format" class="py-name" href="#" onclick="return doclink('link-91', 'format', 'link-91');">format</a></tt> <tt class="py-op">=</tt> <tt id="link-92" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-92', 'Group', 'link-26');">Group</a></tt><tt class="py-op">(</tt><tt class="py-string">"format"</tt><tt class="py-op">,</tt> </tt>
<a name="L62"></a><tt class="py-lineno">62</tt>  <tt class="py-line">               <tt id="link-93" class="py-name"><a title="Bio.expressions.swissprot.speclist.SkipLinesToNoEOL" class="py-name" href="#" onclick="return doclink('link-93', 'SkipLinesToNoEOL', 'link-53');">SkipLinesToNoEOL</a></tt><tt class="py-op">(</tt><tt id="link-94" class="py-name"><a title="Bio.expressions.swissprot.speclist.DESCRIPTION" class="py-name" href="#" onclick="return doclink('link-94', 'DESCRIPTION', 'link-4');">DESCRIPTION</a></tt><tt class="py-op">)</tt> <tt class="py-op">+</tt> </tt>
<a name="L63"></a><tt class="py-lineno">63</tt>  <tt class="py-line">               <tt id="link-95" class="py-name"><a title="Bio.PDB.MMCIF2Dict.MMCIF2Dict.NAME
Bio.expressions.swissprot.speclist.NAME" class="py-name" href="#" onclick="return doclink('link-95', 'NAME', 'link-9');">NAME</a></tt> <tt class="py-op">+</tt> </tt>
<a name="L64"></a><tt class="py-lineno">64</tt>  <tt class="py-line">               <tt id="link-96" class="py-name"><a title="Bio.expressions.swissprot.speclist.RELEASE" class="py-name" href="#" onclick="return doclink('link-96', 'RELEASE', 'link-14');">RELEASE</a></tt> <tt class="py-op">+</tt> </tt>
<a name="L65"></a><tt class="py-lineno">65</tt>  <tt class="py-line">               <tt id="link-97" class="py-name"><a title="Bio.expressions.swissprot.speclist.SkipLinesToNoEOL" class="py-name" href="#" onclick="return doclink('link-97', 'SkipLinesToNoEOL', 'link-53');">SkipLinesToNoEOL</a></tt><tt class="py-op">(</tt><tt id="link-98" class="py-name"><a title="Bio.expressions.swissprot.speclist.TOTAL_CODES" class="py-name" href="#" onclick="return doclink('link-98', 'TOTAL_CODES', 'link-19');">TOTAL_CODES</a></tt><tt class="py-op">)</tt> <tt class="py-op">+</tt> </tt>
<a name="L66"></a><tt class="py-lineno">66</tt>  <tt class="py-line">               <tt id="link-99" class="py-name"><a title="Bio.expressions.swissprot.speclist.SkipLinesToNoEOL" class="py-name" href="#" onclick="return doclink('link-99', 'SkipLinesToNoEOL', 'link-53');">SkipLinesToNoEOL</a></tt><tt class="py-op">(</tt><tt id="link-100" class="py-name"><a title="Bio.expressions.swissprot.speclist.TABLE_HEADER" class="py-name" href="#" onclick="return doclink('link-100', 'TABLE_HEADER', 'link-25');">TABLE_HEADER</a></tt><tt class="py-op">)</tt> <tt class="py-op">+</tt> </tt>
<a name="L67"></a><tt class="py-lineno">67</tt>  <tt class="py-line">               <tt id="link-101" class="py-name"><a title="Martel.Rep1" class="py-name" href="#" onclick="return doclink('link-101', 'Rep1', 'link-41');">Rep1</a></tt><tt class="py-op">(</tt><tt id="link-102" class="py-name"><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-102', 'record', 'link-84');">record</a></tt><tt class="py-op">)</tt> <tt class="py-op">+</tt> </tt>
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