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<a href="Bio-module.html">Package Bio</a> ::
<a href="Bio.expressions-module.html">Package expressions</a> ::
<a href="Bio.expressions.swissprot-module.html">Package swissprot</a> ::
Module ipi
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<h1 class="epydoc">Source Code for <a href="Bio.expressions.swissprot.ipi-module.html">Module Bio.expressions.swissprot.ipi</a></h1>
<pre class="py-src">
<a name="L1"></a><tt class="py-lineno"> 1</tt> <tt class="py-line"><tt class="py-docstring">"""Expression for IPI format.</tt> </tt>
<a name="L2"></a><tt class="py-lineno"> 2</tt> <tt class="py-line"><tt class="py-docstring"></tt> </tt>
<a name="L3"></a><tt class="py-lineno"> 3</tt> <tt class="py-line"><tt class="py-docstring">IPI is nearly swissprot, but contains some differents which makes the</tt> </tt>
<a name="L4"></a><tt class="py-lineno"> 4</tt> <tt class="py-line"><tt class="py-docstring">Swissprot parsers choke.</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>
<a name="L7"></a><tt class="py-lineno"> 7</tt> <tt class="py-line"><tt class="py-keyword">import</tt> <tt class="py-name">warnings</tt> </tt>
<a name="L8"></a><tt class="py-lineno"> 8</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="L9"></a><tt class="py-lineno"> 9</tt> <tt class="py-line"> </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 Bio=Bio-module.html"><a title="Bio" class="py-name" href="#" onclick="return doclink('link-0', 'Bio', 'link-0');">Bio</a></tt> <tt class="py-keyword">import</tt> <tt id="link-1" class="py-name" targets="Module Bio.Std=Bio.Std-module.html"><a title="Bio.Std" class="py-name" href="#" onclick="return doclink('link-1', 'Std', 'link-1');">Std</a></tt> </tt>
<a name="L13"></a><tt class="py-lineno">13</tt> <tt class="py-line"><tt class="py-keyword">import</tt> <tt id="link-2" class="py-name" targets="Package Martel=Martel-module.html"><a title="Martel" class="py-name" href="#" onclick="return doclink('link-2', 'Martel', 'link-2');">Martel</a></tt> </tt>
<a name="L14"></a><tt class="py-lineno">14</tt> <tt class="py-line"><tt class="py-keyword">from</tt> <tt id="link-3" class="py-name"><a title="Martel" class="py-name" href="#" onclick="return doclink('link-3', 'Martel', 'link-2');">Martel</a></tt> <tt class="py-keyword">import</tt> <tt id="link-4" class="py-name" targets="Module Martel.Time=Martel.Time-module.html"><a title="Martel.Time" class="py-name" href="#" onclick="return doclink('link-4', 'Time', 'link-4');">Time</a></tt> </tt>
<a name="L15"></a><tt class="py-lineno">15</tt> <tt class="py-line"><tt class="py-keyword">import</tt> <tt id="link-5" class="py-name" targets="Module Bio.expressions.swissprot.sprot40=Bio.expressions.swissprot.sprot40-module.html,Variable Bio.formatdefs.swissprot.sprot40=Bio.formatdefs.swissprot-module.html#sprot40"><a title="Bio.expressions.swissprot.sprot40
Bio.formatdefs.swissprot.sprot40" class="py-name" href="#" onclick="return doclink('link-5', 'sprot40', 'link-5');">sprot40</a></tt> </tt>
<a name="L16"></a><tt class="py-lineno">16</tt> <tt class="py-line"> </tt>
<a name="L17"></a><tt class="py-lineno">17</tt> <tt class="py-line"><tt class="py-comment"># The ID line contains a versioned period number</tt> </tt>
<a name="L18"></a><tt class="py-lineno">18</tt> <tt class="py-line"><tt class="py-comment"></tt><tt id="link-6" class="py-name" targets="Variable Bio.expressions.swissprot.ipi.ID_exp=Bio.expressions.swissprot.ipi-module.html#ID_exp"><a title="Bio.expressions.swissprot.ipi.ID_exp" class="py-name" href="#" onclick="return doclink('link-6', 'ID_exp', 'link-6');">ID_exp</a></tt> <tt class="py-op">=</tt> <tt id="link-7" class="py-name"><a title="Martel" class="py-name" href="#" onclick="return doclink('link-7', 'Martel', 'link-2');">Martel</a></tt><tt class="py-op">.</tt><tt id="link-8" 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-8', 'Group', 'link-8');">Group</a></tt><tt class="py-op">(</tt><tt class="py-string">"ID"</tt><tt class="py-op">,</tt> </tt>
<a name="L19"></a><tt class="py-lineno">19</tt> <tt class="py-line"> <tt id="link-9" class="py-name"><a title="Martel" class="py-name" href="#" onclick="return doclink('link-9', 'Martel', 'link-2');">Martel</a></tt><tt class="py-op">.</tt><tt id="link-10" 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-10', 'Str', 'link-10');">Str</a></tt><tt class="py-op">(</tt><tt class="py-string">"ID "</tt><tt class="py-op">)</tt> <tt class="py-op">+</tt> \ </tt>
<a name="L20"></a><tt class="py-lineno">20</tt> <tt class="py-line"> <tt id="link-11" class="py-name"><a title="Bio.Std" class="py-name" href="#" onclick="return doclink('link-11', 'Std', 'link-1');">Std</a></tt><tt class="py-op">.</tt><tt id="link-12" 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-12', 'dbid', 'link-12');">dbid</a></tt><tt class="py-op">(</tt><tt id="link-13" class="py-name"><a title="Martel" class="py-name" href="#" onclick="return doclink('link-13', 'Martel', 'link-2');">Martel</a></tt><tt class="py-op">.</tt><tt id="link-14" class="py-name"><a title="Martel.Expression.Group
Martel.Group" class="py-name" href="#" onclick="return doclink('link-14', 'Group', 'link-8');">Group</a></tt><tt class="py-op">(</tt><tt class="py-string">"entry_name"</tt><tt class="py-op">,</tt> <tt id="link-15" class="py-name"><a title="Martel" class="py-name" href="#" onclick="return doclink('link-15', 'Martel', 'link-2');">Martel</a></tt><tt class="py-op">.</tt><tt id="link-16" class="py-name" targets="Function Martel.Re()=Martel-module.html#Re"><a title="Martel.Re" class="py-name" href="#" onclick="return doclink('link-16', 'Re', 'link-16');">Re</a></tt><tt class="py-op">(</tt><tt class="py-string">"[\w.]+"</tt><tt class="py-op">)</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 class="py-op">{</tt><tt class="py-string">"type"</tt><tt class="py-op">:</tt> <tt class="py-string">"primary"</tt><tt class="py-op">,</tt> <tt class="py-string">"dbname"</tt><tt class="py-op">:</tt> <tt class="py-string">"sp"</tt><tt class="py-op">}</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-17" class="py-name"><a title="Martel" class="py-name" href="#" onclick="return doclink('link-17', 'Martel', 'link-2');">Martel</a></tt><tt class="py-op">.</tt><tt id="link-18" class="py-name" targets="Function Martel.Spaces()=Martel-module.html#Spaces"><a title="Martel.Spaces" class="py-name" href="#" onclick="return doclink('link-18', 'Spaces', 'link-18');">Spaces</a></tt><tt class="py-op">(</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 id="link-19" class="py-name"><a title="Martel" class="py-name" href="#" onclick="return doclink('link-19', 'Martel', 'link-2');">Martel</a></tt><tt class="py-op">.</tt><tt id="link-20" class="py-name" targets="Function Martel.Word()=Martel-module.html#Word"><a title="Martel.Word" class="py-name" href="#" onclick="return doclink('link-20', 'Word', 'link-20');">Word</a></tt><tt class="py-op">(</tt><tt class="py-string">"data_class_table"</tt><tt class="py-op">)</tt> <tt class="py-op">+</tt> \ </tt>
<a name="L24"></a><tt class="py-lineno">24</tt> <tt class="py-line"> <tt id="link-21" class="py-name"><a title="Martel" class="py-name" href="#" onclick="return doclink('link-21', 'Martel', 'link-2');">Martel</a></tt><tt class="py-op">.</tt><tt id="link-22" class="py-name"><a title="Martel.Expression.Str
Martel.Str" class="py-name" href="#" onclick="return doclink('link-22', 'Str', 'link-10');">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-23" class="py-name"><a title="Martel" class="py-name" href="#" onclick="return doclink('link-23', 'Martel', 'link-2');">Martel</a></tt><tt class="py-op">.</tt><tt id="link-24" class="py-name"><a title="Martel.Spaces" class="py-name" href="#" onclick="return doclink('link-24', 'Spaces', 'link-18');">Spaces</a></tt><tt class="py-op">(</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 id="link-25" class="py-name"><a title="Martel" class="py-name" href="#" onclick="return doclink('link-25', 'Martel', 'link-2');">Martel</a></tt><tt class="py-op">.</tt><tt id="link-26" class="py-name"><a title="Martel.Word" class="py-name" href="#" onclick="return doclink('link-26', 'Word', 'link-20');">Word</a></tt><tt class="py-op">(</tt><tt class="py-string">"molecule_type"</tt><tt class="py-op">)</tt> <tt class="py-op">+</tt> \ </tt>
<a name="L26"></a><tt class="py-lineno">26</tt> <tt class="py-line"> <tt id="link-27" class="py-name"><a title="Martel" class="py-name" href="#" onclick="return doclink('link-27', 'Martel', 'link-2');">Martel</a></tt><tt class="py-op">.</tt><tt id="link-28" class="py-name"><a title="Martel.Expression.Str
Martel.Str" class="py-name" href="#" onclick="return doclink('link-28', 'Str', 'link-10');">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-29" class="py-name"><a title="Martel" class="py-name" href="#" onclick="return doclink('link-29', 'Martel', 'link-2');">Martel</a></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-18');">Spaces</a></tt><tt class="py-op">(</tt><tt class="py-op">)</tt> <tt class="py-op">+</tt> \ </tt>
<a name="L27"></a><tt class="py-lineno">27</tt> <tt class="py-line"> <tt id="link-31" class="py-name"><a title="Martel" class="py-name" href="#" onclick="return doclink('link-31', 'Martel', 'link-2');">Martel</a></tt><tt class="py-op">.</tt><tt id="link-32" class="py-name" targets="Function Martel.Digits()=Martel-module.html#Digits"><a title="Martel.Digits" class="py-name" href="#" onclick="return doclink('link-32', 'Digits', 'link-32');">Digits</a></tt><tt class="py-op">(</tt><tt class="py-string">"sequence_length"</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-33" class="py-name"><a title="Martel" class="py-name" href="#" onclick="return doclink('link-33', 'Martel', 'link-2');">Martel</a></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-10');">Str</a></tt><tt class="py-op">(</tt><tt class="py-string">" AA."</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-35" class="py-name"><a title="Martel" class="py-name" href="#" onclick="return doclink('link-35', 'Martel', 'link-2');">Martel</a></tt><tt class="py-op">.</tt><tt id="link-36" 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-36', 'AnyEol', 'link-36');">AnyEol</a></tt><tt class="py-op">(</tt><tt class="py-op">)</tt> </tt>
<a name="L30"></a><tt class="py-lineno">30</tt> <tt class="py-line"> <tt class="py-op">)</tt> </tt>
<a name="L31"></a><tt class="py-lineno">31</tt> <tt class="py-line"> </tt>
<a name="L32"></a><tt class="py-lineno">32</tt> <tt class="py-line"><tt class="py-comment"># The DT formatted lines look different, and there is not</tt> </tt>
<a name="L33"></a><tt class="py-lineno">33</tt> <tt class="py-line"><tt class="py-comment"></tt><tt class="py-comment"># a third DT line for annotations</tt> </tt>
<a name="L34"></a><tt class="py-lineno">34</tt> <tt class="py-line"><tt class="py-comment"></tt><tt class="py-comment"># DT 04-MAR-2003 (IPI Human rel. 2.17, Created)</tt> </tt>
<a name="L35"></a><tt class="py-lineno">35</tt> <tt class="py-line"><tt class="py-comment"></tt><tt class="py-comment"># DT 04-MAR-2003 (IPI Human rel. 2.17, Last sequence update)</tt> </tt>
<a name="L36"></a><tt class="py-lineno">36</tt> <tt class="py-line"><tt class="py-comment"></tt> </tt>
<a name="L37"></a><tt class="py-lineno">37</tt> <tt class="py-line"><tt id="link-37" class="py-name" targets="Variable Bio.expressions.swissprot.ipi.DT_created_exp=Bio.expressions.swissprot.ipi-module.html#DT_created_exp,Variable Bio.expressions.swissprot.sprot40.DT_created_exp=Bio.expressions.swissprot.sprot40-module.html#DT_created_exp"><a title="Bio.expressions.swissprot.ipi.DT_created_exp
Bio.expressions.swissprot.sprot40.DT_created_exp" class="py-name" href="#" onclick="return doclink('link-37', 'DT_created_exp', 'link-37');">DT_created_exp</a></tt> <tt class="py-op">=</tt> <tt class="py-op">(</tt><tt id="link-38" class="py-name"><a title="Martel" class="py-name" href="#" onclick="return doclink('link-38', 'Martel', 'link-2');">Martel</a></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-10');">Str</a></tt><tt class="py-op">(</tt><tt class="py-string">"DT "</tt><tt class="py-op">)</tt> <tt class="py-op">+</tt> </tt>
<a name="L38"></a><tt class="py-lineno">38</tt> <tt class="py-line"> <tt id="link-40" class="py-name"><a title="Martel.Time" class="py-name" href="#" onclick="return doclink('link-40', 'Time', 'link-4');">Time</a></tt><tt class="py-op">.</tt><tt id="link-41" class="py-name" targets="Function Martel.Time.make_expression()=Martel.Time-module.html#make_expression,Function Martel.convert_re.make_expression()=Martel.convert_re-module.html#make_expression"><a title="Martel.Time.make_expression
Martel.convert_re.make_expression" class="py-name" href="#" onclick="return doclink('link-41', 'make_expression', 'link-41');">make_expression</a></tt><tt class="py-op">(</tt><tt class="py-string">"%(DD)-%(Jan)-%(YYYY)"</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-42" class="py-name"><a title="Martel" class="py-name" href="#" onclick="return doclink('link-42', 'Martel', 'link-2');">Martel</a></tt><tt class="py-op">.</tt><tt id="link-43" class="py-name"><a title="Martel.Expression.Str
Martel.Str" class="py-name" href="#" onclick="return doclink('link-43', 'Str', 'link-10');">Str</a></tt><tt class="py-op">(</tt><tt class="py-string">" (IPI Human rel. "</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-44" class="py-name"><a title="Martel" class="py-name" href="#" onclick="return doclink('link-44', 'Martel', 'link-2');">Martel</a></tt><tt class="py-op">.</tt><tt id="link-45" class="py-name" targets="Class Bio.Decode.Float=Bio.Decode.Float-class.html,Function Martel.Float()=Martel-module.html#Float"><a title="Bio.Decode.Float
Martel.Float" class="py-name" href="#" onclick="return doclink('link-45', 'Float', 'link-45');">Float</a></tt><tt class="py-op">(</tt><tt class="py-string">"release"</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 id="link-46" class="py-name"><a title="Martel" class="py-name" href="#" onclick="return doclink('link-46', 'Martel', 'link-2');">Martel</a></tt><tt class="py-op">.</tt><tt id="link-47" class="py-name"><a title="Martel.Expression.Str
Martel.Str" class="py-name" href="#" onclick="return doclink('link-47', 'Str', 'link-10');">Str</a></tt><tt class="py-op">(</tt><tt class="py-string">", Created)"</tt><tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt id="link-48" class="py-name"><a title="Martel" class="py-name" href="#" onclick="return doclink('link-48', 'Martel', 'link-2');">Martel</a></tt><tt class="py-op">.</tt><tt id="link-49" class="py-name"><a title="Martel.Expression.AnyEol" class="py-name" href="#" onclick="return doclink('link-49', 'AnyEol', 'link-36');">AnyEol</a></tt><tt class="py-op">(</tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L42"></a><tt class="py-lineno">42</tt> <tt class="py-line"> </tt>
<a name="L43"></a><tt class="py-lineno">43</tt> <tt class="py-line"><tt id="link-50" class="py-name" targets="Variable Bio.expressions.swissprot.ipi.DT_seq_update_exp=Bio.expressions.swissprot.ipi-module.html#DT_seq_update_exp"><a title="Bio.expressions.swissprot.ipi.DT_seq_update_exp" class="py-name" href="#" onclick="return doclink('link-50', 'DT_seq_update_exp', 'link-50');">DT_seq_update_exp</a></tt> <tt class="py-op">=</tt> <tt class="py-op">(</tt><tt id="link-51" class="py-name"><a title="Martel" class="py-name" href="#" onclick="return doclink('link-51', 'Martel', 'link-2');">Martel</a></tt><tt class="py-op">.</tt><tt id="link-52" class="py-name"><a title="Martel.Expression.Str
Martel.Str" class="py-name" href="#" onclick="return doclink('link-52', 'Str', 'link-10');">Str</a></tt><tt class="py-op">(</tt><tt class="py-string">"DT "</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-53" class="py-name"><a title="Martel.Time" class="py-name" href="#" onclick="return doclink('link-53', 'Time', 'link-4');">Time</a></tt><tt class="py-op">.</tt><tt id="link-54" class="py-name"><a title="Martel.Time.make_expression
Martel.convert_re.make_expression" class="py-name" href="#" onclick="return doclink('link-54', 'make_expression', 'link-41');">make_expression</a></tt><tt class="py-op">(</tt><tt class="py-string">"%(DD)-%(Jan)-%(YYYY)"</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-55" class="py-name"><a title="Martel" class="py-name" href="#" onclick="return doclink('link-55', 'Martel', 'link-2');">Martel</a></tt><tt class="py-op">.</tt><tt id="link-56" class="py-name"><a title="Martel.Expression.Str
Martel.Str" class="py-name" href="#" onclick="return doclink('link-56', 'Str', 'link-10');">Str</a></tt><tt class="py-op">(</tt><tt class="py-string">" (IPI Human rel. "</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-57" class="py-name"><a title="Martel" class="py-name" href="#" onclick="return doclink('link-57', 'Martel', 'link-2');">Martel</a></tt><tt class="py-op">.</tt><tt id="link-58" class="py-name"><a title="Bio.Decode.Float
Martel.Float" class="py-name" href="#" onclick="return doclink('link-58', 'Float', 'link-45');">Float</a></tt><tt class="py-op">(</tt><tt class="py-string">"release"</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-59" class="py-name"><a title="Martel" class="py-name" href="#" onclick="return doclink('link-59', 'Martel', 'link-2');">Martel</a></tt><tt class="py-op">.</tt><tt id="link-60" class="py-name"><a title="Martel.Expression.Str
Martel.Str" class="py-name" href="#" onclick="return doclink('link-60', 'Str', 'link-10');">Str</a></tt><tt class="py-op">(</tt><tt class="py-string">", Last sequence update)"</tt><tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt id="link-61" class="py-name"><a title="Martel" class="py-name" href="#" onclick="return doclink('link-61', 'Martel', 'link-2');">Martel</a></tt><tt class="py-op">.</tt><tt id="link-62" class="py-name"><a title="Martel.Expression.AnyEol" class="py-name" href="#" onclick="return doclink('link-62', 'AnyEol', 'link-36');">AnyEol</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>
<a name="L49"></a><tt class="py-lineno">49</tt> <tt class="py-line"><tt id="link-63" class="py-name" targets="Variable Bio.expressions.swissprot.ipi.DT_ann_update_exp=Bio.expressions.swissprot.ipi-module.html#DT_ann_update_exp"><a title="Bio.expressions.swissprot.ipi.DT_ann_update_exp" class="py-name" href="#" onclick="return doclink('link-63', 'DT_ann_update_exp', 'link-63');">DT_ann_update_exp</a></tt> <tt class="py-op">=</tt> <tt class="py-op">(</tt><tt id="link-64" class="py-name"><a title="Martel" class="py-name" href="#" onclick="return doclink('link-64', 'Martel', 'link-2');">Martel</a></tt><tt class="py-op">.</tt><tt id="link-65" class="py-name"><a title="Martel.Expression.Str
Martel.Str" class="py-name" href="#" onclick="return doclink('link-65', 'Str', 'link-10');">Str</a></tt><tt class="py-op">(</tt><tt class="py-string">"DT "</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-66" class="py-name"><a title="Martel.Time" class="py-name" href="#" onclick="return doclink('link-66', 'Time', 'link-4');">Time</a></tt><tt class="py-op">.</tt><tt id="link-67" class="py-name"><a title="Martel.Time.make_expression
Martel.convert_re.make_expression" class="py-name" href="#" onclick="return doclink('link-67', 'make_expression', 'link-41');">make_expression</a></tt><tt class="py-op">(</tt><tt class="py-string">"%(DD)-%(Jan)-%(YYYY)"</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-68" class="py-name"><a title="Martel" class="py-name" href="#" onclick="return doclink('link-68', 'Martel', 'link-2');">Martel</a></tt><tt class="py-op">.</tt><tt id="link-69" class="py-name"><a title="Martel.Expression.Str
Martel.Str" class="py-name" href="#" onclick="return doclink('link-69', 'Str', 'link-10');">Str</a></tt><tt class="py-op">(</tt><tt class="py-string">" (IPI Human rel. "</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-70" class="py-name"><a title="Martel" class="py-name" href="#" onclick="return doclink('link-70', 'Martel', 'link-2');">Martel</a></tt><tt class="py-op">.</tt><tt id="link-71" class="py-name"><a title="Bio.Decode.Float
Martel.Float" class="py-name" href="#" onclick="return doclink('link-71', 'Float', 'link-45');">Float</a></tt><tt class="py-op">(</tt><tt class="py-string">"release"</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-72" class="py-name"><a title="Martel" class="py-name" href="#" onclick="return doclink('link-72', 'Martel', 'link-2');">Martel</a></tt><tt class="py-op">.</tt><tt id="link-73" class="py-name"><a title="Martel.Expression.Str
Martel.Str" class="py-name" href="#" onclick="return doclink('link-73', 'Str', 'link-10');">Str</a></tt><tt class="py-op">(</tt><tt class="py-string">", Last annotation update)"</tt><tt class="py-op">)</tt> <tt class="py-op">+</tt> <tt id="link-74" class="py-name"><a title="Martel" class="py-name" href="#" onclick="return doclink('link-74', 'Martel', 'link-2');">Martel</a></tt><tt class="py-op">.</tt><tt id="link-75" class="py-name"><a title="Martel.Expression.AnyEol" class="py-name" href="#" onclick="return doclink('link-75', 'AnyEol', 'link-36');">AnyEol</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>
<a name="L55"></a><tt class="py-lineno">55</tt> <tt class="py-line"> </tt>
<a name="L56"></a><tt class="py-lineno">56</tt> <tt class="py-line"><tt id="link-76" class="py-name" targets="Variable Bio.expressions.swissprot.ipi.replacements=Bio.expressions.swissprot.ipi-module.html#replacements,Variable Bio.expressions.swissprot.sprot40.replacements=Bio.expressions.swissprot.sprot40-module.html#replacements"><a title="Bio.expressions.swissprot.ipi.replacements
Bio.expressions.swissprot.sprot40.replacements" class="py-name" href="#" onclick="return doclink('link-76', 'replacements', 'link-76');">replacements</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 class="py-op">(</tt><tt class="py-string">"ID"</tt><tt class="py-op">,</tt> <tt id="link-77" class="py-name"><a title="Bio.expressions.swissprot.ipi.ID_exp" class="py-name" href="#" onclick="return doclink('link-77', 'ID_exp', 'link-6');">ID_exp</a></tt><tt class="py-op">)</tt><tt class="py-op">,</tt> </tt>
<a name="L58"></a><tt class="py-lineno">58</tt> <tt class="py-line"> <tt class="py-op">(</tt><tt class="py-string">"DT_created"</tt><tt class="py-op">,</tt> <tt id="link-78" class="py-name"><a title="Bio.expressions.swissprot.ipi.DT_created_exp
Bio.expressions.swissprot.sprot40.DT_created_exp" class="py-name" href="#" onclick="return doclink('link-78', 'DT_created_exp', 'link-37');">DT_created_exp</a></tt><tt class="py-op">)</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 class="py-string">"DT_seq_update"</tt><tt class="py-op">,</tt> <tt id="link-79" class="py-name"><a title="Bio.expressions.swissprot.ipi.DT_seq_update_exp" class="py-name" href="#" onclick="return doclink('link-79', 'DT_seq_update_exp', 'link-50');">DT_seq_update_exp</a></tt><tt class="py-op">)</tt><tt class="py-op">,</tt> </tt>
<a name="L60"></a><tt class="py-lineno">60</tt> <tt class="py-line"> <tt class="py-op">(</tt><tt class="py-string">"DT_ann_update"</tt><tt class="py-op">,</tt> <tt id="link-80" class="py-name"><a title="Martel" class="py-name" href="#" onclick="return doclink('link-80', 'Martel', 'link-2');">Martel</a></tt><tt class="py-op">.</tt><tt id="link-81" class="py-name" targets="Function Martel.Opt()=Martel-module.html#Opt"><a title="Martel.Opt" class="py-name" href="#" onclick="return doclink('link-81', 'Opt', 'link-81');">Opt</a></tt><tt class="py-op">(</tt><tt id="link-82" class="py-name"><a title="Bio.expressions.swissprot.ipi.DT_ann_update_exp" class="py-name" href="#" onclick="return doclink('link-82', 'DT_ann_update_exp', 'link-63');">DT_ann_update_exp</a></tt><tt class="py-op">)</tt><tt class="py-op">)</tt> </tt>
<a name="L61"></a><tt class="py-lineno">61</tt> <tt class="py-line"> <tt class="py-op">]</tt> </tt>
<a name="L62"></a><tt class="py-lineno">62</tt> <tt class="py-line"> </tt>
<a name="L63"></a><tt class="py-lineno">63</tt> <tt class="py-line"><tt id="link-83" 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-83', 'record', 'link-83');">record</a></tt> <tt class="py-op">=</tt> <tt id="link-84" class="py-name"><a title="Martel" class="py-name" href="#" onclick="return doclink('link-84', 'Martel', 'link-2');">Martel</a></tt><tt class="py-op">.</tt><tt id="link-85" class="py-name" targets="Function Martel.replace_groups()=Martel-module.html#replace_groups"><a title="Martel.replace_groups" class="py-name" href="#" onclick="return doclink('link-85', 'replace_groups', 'link-85');">replace_groups</a></tt><tt class="py-op">(</tt><tt id="link-86" class="py-name"><a title="Bio.expressions.swissprot.sprot40
Bio.formatdefs.swissprot.sprot40" class="py-name" href="#" onclick="return doclink('link-86', 'sprot40', 'link-5');">sprot40</a></tt><tt class="py-op">.</tt><tt id="link-87" 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-87', 'record', 'link-83');">record</a></tt><tt class="py-op">,</tt> <tt id="link-88" class="py-name"><a title="Bio.expressions.swissprot.ipi.replacements
Bio.expressions.swissprot.sprot40.replacements" class="py-name" href="#" onclick="return doclink('link-88', 'replacements', 'link-76');">replacements</a></tt><tt class="py-op">)</tt> </tt>
<a name="L64"></a><tt class="py-lineno">64</tt> <tt class="py-line"> </tt>
<a name="L65"></a><tt class="py-lineno">65</tt> <tt class="py-line"> </tt>
<a name="L66"></a><tt class="py-lineno">66</tt> <tt class="py-line"><tt id="link-89" class="py-name" targets="Variable Bio.expressions.blocks.format_expression=Bio.expressions.blocks-module.html#format_expression,Variable Bio.expressions.embl.embl65.format_expression=Bio.expressions.embl.embl65-module.html#format_expression,Variable Bio.expressions.swissprot.ipi.format_expression=Bio.expressions.swissprot.ipi-module.html#format_expression,Variable Bio.expressions.swissprot.sprot38.format_expression=Bio.expressions.swissprot.sprot38-module.html#format_expression,Variable Bio.expressions.swissprot.sprot40.format_expression=Bio.expressions.swissprot.sprot40-module.html#format_expression,Variable Martel.test.test_swissprot38.format_expression=Martel.test.test_swissprot38-module.html#format_expression,Variable Martel.test.testformats.swissprot38.format_expression=Martel.test.testformats.swissprot38-module.html#format_expression"><a title="Bio.expressions.blocks.format_expression
Bio.expressions.embl.embl65.format_expression
Bio.expressions.swissprot.ipi.format_expression
Bio.expressions.swissprot.sprot38.format_expression
Bio.expressions.swissprot.sprot40.format_expression
Martel.test.test_swissprot38.format_expression
Martel.test.testformats.swissprot38.format_expression" class="py-name" href="#" onclick="return doclink('link-89', 'format_expression', 'link-89');">format_expression</a></tt> <tt class="py-op">=</tt> <tt id="link-90" class="py-name"><a title="Martel" class="py-name" href="#" onclick="return doclink('link-90', 'Martel', 'link-2');">Martel</a></tt><tt class="py-op">.</tt><tt id="link-91" class="py-name"><a title="Martel.replace_groups" class="py-name" href="#" onclick="return doclink('link-91', 'replace_groups', 'link-85');">replace_groups</a></tt><tt class="py-op">(</tt> </tt>
<a name="L67"></a><tt class="py-lineno">67</tt> <tt class="py-line"> <tt id="link-92" class="py-name"><a title="Bio.expressions.swissprot.sprot40
Bio.formatdefs.swissprot.sprot40" class="py-name" href="#" onclick="return doclink('link-92', 'sprot40', 'link-5');">sprot40</a></tt><tt class="py-op">.</tt><tt id="link-93" class="py-name"><a title="Bio.expressions.blocks.format_expression
Bio.expressions.embl.embl65.format_expression
Bio.expressions.swissprot.ipi.format_expression
Bio.expressions.swissprot.sprot38.format_expression
Bio.expressions.swissprot.sprot40.format_expression
Martel.test.test_swissprot38.format_expression
Martel.test.testformats.swissprot38.format_expression" class="py-name" href="#" onclick="return doclink('link-93', 'format_expression', 'link-89');">format_expression</a></tt><tt class="py-op">,</tt> <tt id="link-94" class="py-name"><a title="Bio.expressions.swissprot.ipi.replacements
Bio.expressions.swissprot.sprot40.replacements" class="py-name" href="#" onclick="return doclink('link-94', 'replacements', 'link-76');">replacements</a></tt><tt class="py-op">)</tt> </tt>
<a name="L68"></a><tt class="py-lineno">68</tt> <tt class="py-line"> </tt>
<a name="L69"></a><tt class="py-lineno">69</tt> <tt class="py-line"><tt id="link-95" 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-95', 'format', 'link-95');">format</a></tt> <tt class="py-op">=</tt> <tt id="link-96" class="py-name"><a title="Martel" class="py-name" href="#" onclick="return doclink('link-96', 'Martel', 'link-2');">Martel</a></tt><tt class="py-op">.</tt><tt id="link-97" class="py-name"><a title="Martel.replace_groups" class="py-name" href="#" onclick="return doclink('link-97', 'replace_groups', 'link-85');">replace_groups</a></tt><tt class="py-op">(</tt><tt id="link-98" class="py-name"><a title="Bio.expressions.swissprot.sprot40
Bio.formatdefs.swissprot.sprot40" class="py-name" href="#" onclick="return doclink('link-98', 'sprot40', 'link-5');">sprot40</a></tt><tt class="py-op">.</tt><tt id="link-99" class="py-name"><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-99', 'format', 'link-95');">format</a></tt><tt class="py-op">,</tt> <tt id="link-100" class="py-name"><a title="Bio.expressions.swissprot.ipi.replacements
Bio.expressions.swissprot.sprot40.replacements" class="py-name" href="#" onclick="return doclink('link-100', 'replacements', 'link-76');">replacements</a></tt><tt class="py-op">)</tt> </tt>
<a name="L70"></a><tt class="py-lineno">70</tt> <tt class="py-line"> </tt><script type="text/javascript">
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