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<a href="Bio-module.html">Package Bio</a> ::
Package EUtils
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<h1 class="epydoc">Source Code for <a href="Bio.EUtils-module.html">Package Bio.EUtils</a></h1>
<pre class="py-src">
<a name="L1"></a><tt class="py-lineno"> 1</tt> <tt class="py-line"><tt class="py-docstring">"""EUtils is a client-side library for the Entrez databases at NCBI.</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-keyword">import</tt> <tt class="py-name">re</tt> </tt>
<a name="L4"></a><tt class="py-lineno"> 4</tt> <tt class="py-line"> </tt>
<a name="L5"></a><tt class="py-lineno"> 5</tt> <tt class="py-line"><tt class="py-name">__version__</tt> <tt class="py-op">=</tt> <tt class="py-string">"1.0p1"</tt> </tt>
<a name="L6"></a><tt class="py-lineno"> 6</tt> <tt class="py-line"><tt class="py-name">__authors__</tt> <tt class="py-op">=</tt> <tt class="py-op">[</tt><tt class="py-string">"Andrew Dalke, Dalke Scientific Software"</tt><tt class="py-op">]</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 id="link-0" class="py-name" targets="Module Bio.EUtils.Datatypes=Bio.EUtils.Datatypes-module.html"><a title="Bio.EUtils.Datatypes" class="py-name" href="#" onclick="return doclink('link-0', 'Datatypes', 'link-0');">Datatypes</a></tt> </tt>
<a name="L9"></a><tt class="py-lineno"> 9</tt> <tt class="py-line"><tt class="py-keyword">from</tt> <tt id="link-1" class="py-name"><a title="Bio.EUtils.Datatypes" class="py-name" href="#" onclick="return doclink('link-1', 'Datatypes', 'link-0');">Datatypes</a></tt> <tt class="py-keyword">import</tt> <tt id="link-2" class="py-name" targets="Class Bio.EUtils.Datatypes.DateRange=Bio.EUtils.Datatypes.DateRange-class.html"><a title="Bio.EUtils.Datatypes.DateRange" class="py-name" href="#" onclick="return doclink('link-2', 'DateRange', 'link-2');">DateRange</a></tt><tt class="py-op">,</tt> <tt id="link-3" class="py-name" targets="Class Bio.EUtils.Datatypes.WithinNDays=Bio.EUtils.Datatypes.WithinNDays-class.html"><a title="Bio.EUtils.Datatypes.WithinNDays" class="py-name" href="#" onclick="return doclink('link-3', 'WithinNDays', 'link-3');">WithinNDays</a></tt><tt class="py-op">,</tt> <tt id="link-4" class="py-name" targets="Class Bio.EUtils.Datatypes.EUtilsError=Bio.EUtils.Datatypes.EUtilsError-class.html"><a title="Bio.EUtils.Datatypes.EUtilsError" class="py-name" href="#" onclick="return doclink('link-4', 'EUtilsError', 'link-4');">EUtilsError</a></tt><tt class="py-op">,</tt> \ </tt>
<a name="L10"></a><tt class="py-lineno">10</tt> <tt class="py-line"> <tt id="link-5" class="py-name" targets="Class Bio.EUtils.Datatypes.EUtilsSearchError=Bio.EUtils.Datatypes.EUtilsSearchError-class.html"><a title="Bio.EUtils.Datatypes.EUtilsSearchError" class="py-name" href="#" onclick="return doclink('link-5', 'EUtilsSearchError', 'link-5');">EUtilsSearchError</a></tt> </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-6" class="py-name" targets="Module Bio.EUtils.Config=Bio.EUtils.Config-module.html"><a title="Bio.EUtils.Config" class="py-name" href="#" onclick="return doclink('link-6', 'Config', 'link-6');">Config</a></tt> <tt class="py-keyword">import</tt> <tt id="link-7" class="py-name" targets="Variable Bio.EUtils.Config.databases=Bio.EUtils.Config-module.html#databases"><a title="Bio.EUtils.Config.databases" class="py-name" href="#" onclick="return doclink('link-7', 'databases', 'link-7');">databases</a></tt> </tt>
<a name="L13"></a><tt class="py-lineno">13</tt> <tt class="py-line"> </tt>
<a name="DBIds"></a><div id="DBIds-def"><a name="L14"></a><tt class="py-lineno">14</tt> <a class="py-toggle" href="#" id="DBIds-toggle" onclick="return toggle('DBIds');">-</a><tt class="py-line"><tt class="py-keyword">def</tt> <a class="py-def-name" href="Bio.EUtils-module.html#DBIds">DBIds</a><tt class="py-op">(</tt><tt class="py-param">db</tt><tt class="py-op">,</tt> <tt class="py-param">ids</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
</div><div id="DBIds-collapsed" style="display:none;" pad="++" indent="++++"></div><div id="DBIds-expanded"><a name="L15"></a><tt class="py-lineno">15</tt> <tt class="py-line"> <tt class="py-keyword">if</tt> <tt class="py-name">isinstance</tt><tt class="py-op">(</tt><tt id="link-8" class="py-name" targets="Variable Bio.expressions.fasta.ids=Bio.expressions.fasta-module.html#ids"><a title="Bio.expressions.fasta.ids" class="py-name" href="#" onclick="return doclink('link-8', 'ids', 'link-8');">ids</a></tt><tt class="py-op">,</tt> <tt class="py-name">str</tt><tt class="py-op">)</tt><tt class="py-op">:</tt> </tt>
<a name="L16"></a><tt class="py-lineno">16</tt> <tt class="py-line"> <tt id="link-9" class="py-name"><a title="Bio.expressions.fasta.ids" class="py-name" href="#" onclick="return doclink('link-9', 'ids', 'link-8');">ids</a></tt> <tt class="py-op">=</tt> <tt class="py-op">[</tt><tt id="link-10" class="py-name"><a title="Bio.expressions.fasta.ids" class="py-name" href="#" onclick="return doclink('link-10', 'ids', 'link-8');">ids</a></tt><tt class="py-op">]</tt> </tt>
<a name="L17"></a><tt class="py-lineno">17</tt> <tt class="py-line"> <tt id="link-11" class="py-name" targets="Variable Bio.LocusLink.locus_format.db=Bio.LocusLink.locus_format-module.html#db,Variable Bio.config.DBRegistry.db=Bio.config.DBRegistry-module.html#db"><a title="Bio.LocusLink.locus_format.db
Bio.config.DBRegistry.db" class="py-name" href="#" onclick="return doclink('link-11', 'db', 'link-11');">db</a></tt> <tt class="py-op">=</tt> <tt id="link-12" class="py-name"><a title="Bio.LocusLink.locus_format.db
Bio.config.DBRegistry.db" class="py-name" href="#" onclick="return doclink('link-12', 'db', 'link-11');">db</a></tt><tt class="py-op">.</tt><tt class="py-name">lower</tt><tt class="py-op">(</tt><tt class="py-op">)</tt> </tt>
<a name="L18"></a><tt class="py-lineno">18</tt> <tt class="py-line"> <tt class="py-keyword">if</tt> <tt id="link-13" class="py-name"><a title="Bio.LocusLink.locus_format.db
Bio.config.DBRegistry.db" class="py-name" href="#" onclick="return doclink('link-13', 'db', 'link-11');">db</a></tt> <tt class="py-keyword">not</tt> <tt class="py-keyword">in</tt> <tt id="link-14" class="py-name"><a title="Bio.EUtils.Config.databases" class="py-name" href="#" onclick="return doclink('link-14', 'databases', 'link-7');">databases</a></tt><tt class="py-op">:</tt> </tt>
<a name="L19"></a><tt class="py-lineno">19</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">"Unknown database: %s"</tt> <tt class="py-op">%</tt> <tt class="py-op">(</tt><tt id="link-15" class="py-name"><a title="Bio.LocusLink.locus_format.db
Bio.config.DBRegistry.db" class="py-name" href="#" onclick="return doclink('link-15', 'db', 'link-11');">db</a></tt><tt class="py-op">,</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 class="py-keyword">return</tt> <tt id="link-16" class="py-name"><a title="Bio.EUtils.Datatypes" class="py-name" href="#" onclick="return doclink('link-16', 'Datatypes', 'link-0');">Datatypes</a></tt><tt class="py-op">.</tt><tt id="link-17" class="py-name" targets="Class Bio.EUtils.Datatypes.DBIds=Bio.EUtils.Datatypes.DBIds-class.html"><a title="Bio.EUtils.Datatypes.DBIds" class="py-name" href="#" onclick="return doclink('link-17', 'DBIds', 'link-17');">DBIds</a></tt><tt class="py-op">(</tt><tt id="link-18" class="py-name"><a title="Bio.LocusLink.locus_format.db
Bio.config.DBRegistry.db" class="py-name" href="#" onclick="return doclink('link-18', 'db', 'link-11');">db</a></tt><tt class="py-op">,</tt> <tt id="link-19" class="py-name"><a title="Bio.expressions.fasta.ids" class="py-name" href="#" onclick="return doclink('link-19', 'ids', 'link-8');">ids</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="L22"></a><tt class="py-lineno">22</tt> <tt class="py-line"><tt id="link-20" class="py-name" targets="Variable Bio.EUtils.PLUS_STRAND=Bio.EUtils-module.html#PLUS_STRAND"><a title="Bio.EUtils.PLUS_STRAND" class="py-name" href="#" onclick="return doclink('link-20', 'PLUS_STRAND', 'link-20');">PLUS_STRAND</a></tt> <tt class="py-op">=</tt> <tt class="py-number">1</tt> </tt>
<a name="L23"></a><tt class="py-lineno">23</tt> <tt class="py-line"><tt id="link-21" class="py-name" targets="Variable Bio.EUtils.MINUS_STRAND=Bio.EUtils-module.html#MINUS_STRAND"><a title="Bio.EUtils.MINUS_STRAND" class="py-name" href="#" onclick="return doclink('link-21', 'MINUS_STRAND', 'link-21');">MINUS_STRAND</a></tt> <tt class="py-op">=</tt> <tt class="py-number">2</tt> </tt>
<a name="L24"></a><tt class="py-lineno">24</tt> <tt class="py-line"> </tt><script type="text/javascript">
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