<?xml version="1.0" encoding="ascii"?> <!DOCTYPE html PUBLIC "-//W3C//DTD XHTML 1.0 Transitional//EN" "DTD/xhtml1-transitional.dtd"> <html xmlns="http://www.w3.org/1999/xhtml" xml:lang="en" lang="en"> <head> <title>Bio.EUtils.Config</title> <link rel="stylesheet" href="epydoc.css" type="text/css" /> <script type="text/javascript" src="epydoc.js"></script> </head> <body bgcolor="white" text="black" link="blue" vlink="#204080" alink="#204080"> <!-- ==================== NAVIGATION BAR ==================== --> <table class="navbar" border="0" width="100%" cellpadding="0" bgcolor="#a0c0ff" cellspacing="0"> <tr valign="middle"> <!-- Tree link --> <th> <a href="module-tree.html">Trees</a> </th> <!-- Index link --> <th> <a href="identifier-index.html">Indices</a> </th> <!-- Help link --> <th> <a href="help.html">Help</a> </th> <th class="navbar" width="100%"></th> </tr> </table> <table width="100%" cellpadding="0" cellspacing="0"> <tr valign="top"> <td width="100%"> <span class="breadcrumbs"> <a href="Bio-module.html">Package Bio</a> :: <a href="Bio.EUtils-module.html">Package EUtils</a> :: Module Config </span> </td> <td> <table cellpadding="0" cellspacing="0"> <!-- hide/show private --> <tr><td align="right"><span class="options">[<a href="javascript:void(0);" class="privatelink" onclick="toggle_private();">hide private</a>]</span></td></tr> <tr><td align="right"><span class="options" >[<a href="frames.html" target="_top">frames</a >] | <a href="Bio.EUtils.Config-module.html" target="_top">no frames</a>]</span></td></tr> </table> </td> </tr> </table> <!-- ==================== MODULE DESCRIPTION ==================== --> <h1 class="epydoc">Module Config</h1><p class="nomargin-top"><span class="codelink"><a href="Bio.EUtils.Config-pysrc.html">source code</a></span></p> <p>Configuration information about NCBI's databases</p> <!-- ==================== CLASSES ==================== --> <a name="section-Classes"></a> <table class="summary" border="1" cellpadding="3" cellspacing="0" width="100%" bgcolor="white"> <tr bgcolor="#70b0f0" class="table-header"> <td colspan="2" class="table-header"> <table border="0" cellpadding="0" cellspacing="0" width="100%"> <tr valign="top"> <td align="left"><span class="table-header">Classes</span></td> <td align="right" valign="top" ><span class="options">[<a href="#section-Classes" class="privatelink" onclick="toggle_private();" >hide private</a>]</span></td> </tr> </table> </td> </tr> <tr> <td width="15%" align="right" valign="top" class="summary"> <span class="summary-type"> </span> </td><td class="summary"> <a href="Bio.EUtils.Config.DatabaseInfo-class.html" class="summary-name">DatabaseInfo</a><br /> stores NCBI's name for the database and its type </td> </tr> <tr> <td width="15%" align="right" valign="top" class="summary"> <span class="summary-type"> </span> </td><td class="summary"> <a href="Bio.EUtils.Config.DatabaseDict-class.html" class="summary-name">DatabaseDict</a><br /> map from name to DatabaseInfo for that database name </td> </tr> </table> <!-- ==================== FUNCTIONS ==================== --> <a name="section-Functions"></a> <table class="summary" border="1" cellpadding="3" cellspacing="0" width="100%" bgcolor="white"> <tr bgcolor="#70b0f0" class="table-header"> <td colspan="2" class="table-header"> <table border="0" cellpadding="0" cellspacing="0" width="100%"> <tr valign="top"> <td align="left"><span class="table-header">Functions</span></td> <td align="right" valign="top" ><span class="options">[<a href="#section-Functions" class="privatelink" onclick="toggle_private();" >hide private</a>]</span></td> </tr> </table> </td> </tr> <tr class="private"> <td width="15%" align="right" valign="top" class="summary"> <span class="summary-type"> </span> </td><td class="summary"> <table width="100%" cellpadding="0" cellspacing="0" border="0"> <tr> <td><span class="summary-sig"><a name="_add_db"></a><span class="summary-sig-name">_add_db</span>(<span class="summary-sig-arg">x</span>)</span></td> <td align="right" valign="top"> <span class="codelink"><a href="Bio.EUtils.Config-pysrc.html#_add_db">source code</a></span> </td> </tr> </table> </td> </tr> </table> <!-- ==================== VARIABLES ==================== --> <a name="section-Variables"></a> <table class="summary" border="1" cellpadding="3" cellspacing="0" width="100%" bgcolor="white"> <tr bgcolor="#70b0f0" class="table-header"> <td colspan="2" class="table-header"> <table border="0" cellpadding="0" cellspacing="0" width="100%"> <tr valign="top"> <td align="left"><span class="table-header">Variables</span></td> <td align="right" valign="top" ><span class="options">[<a href="#section-Variables" class="privatelink" onclick="toggle_private();" >hide private</a>]</span></td> </tr> </table> </td> </tr> <tr> <td width="15%" align="right" valign="top" class="summary"> <span class="summary-type"> </span> </td><td class="summary"> <a name="PUBLICATION_TYPE"></a><span class="summary-name">PUBLICATION_TYPE</span> = <code title="0">0</code> </td> </tr> <tr> <td width="15%" align="right" valign="top" class="summary"> <span class="summary-type"> </span> </td><td class="summary"> <a name="SEQUENCE_TYPE"></a><span class="summary-name">SEQUENCE_TYPE</span> = <code title="1">1</code> </td> </tr> <tr> <td width="15%" align="right" valign="top" class="summary"> <span class="summary-type"> </span> </td><td class="summary"> <a href="Bio.EUtils.Config-module.html#databases" class="summary-name">databases</a> = <code title="{'journals': <Bio.EUtils.Config.DatabaseInfo instance at 0x32c5e60>, '\ omim': <Bio.EUtils.Config.DatabaseInfo instance at 0x32c58c0>, 'pubmed\ ': <Bio.EUtils.Config.DatabaseInfo instance at 0x32c5fc8>, 'genome': <\ Bio.EUtils.Config.DatabaseInfo instance at 0x32c5d88>, 'sequences': <B\ io.EUtils.Config.DatabaseInfo instance at 0x32c5e18>, 'popset': <Bio.E\ Utils.Config.DatabaseInfo instance at 0x32c5ef0>, 'protein': <Bio.EUti\ ls.Config.DatabaseInfo instance at 0x32c5cf8>, 'gene': <Bio.EUtils.Con\ fig.DatabaseInfo instance at 0x32c5b48>, 'nucleotide': <Bio.EUtils.Con\ ...">{'journals': <Bio.EUtils.Config.DatabaseInfo insta<code class="variable-ellipsis">...</code></code> </td> </tr> </table> <!-- ==================== VARIABLES DETAILS ==================== --> <a name="section-VariablesDetails"></a> <table class="details" border="1" cellpadding="3" cellspacing="0" width="100%" bgcolor="white"> <tr bgcolor="#70b0f0" class="table-header"> <td colspan="2" class="table-header"> <table border="0" cellpadding="0" cellspacing="0" width="100%"> <tr valign="top"> <td align="left"><span class="table-header">Variables Details</span></td> <td align="right" valign="top" ><span class="options">[<a href="#section-VariablesDetails" class="privatelink" onclick="toggle_private();" >hide private</a>]</span></td> </tr> </table> </td> </tr> </table> <a name="databases"></a> <div> <table class="details" border="1" cellpadding="3" cellspacing="0" width="100%" bgcolor="white"> <tr><td> <h3 class="epydoc">databases</h3> <dl class="fields"> </dl> <dl class="fields"> <dt>Value:</dt> <dd><table><tr><td><pre class="variable"> {'journals': <Bio.EUtils.Config.DatabaseInfo instance at 0x32c5e60>, '<span class="variable-linewrap"><img src="crarr.png" alt="\" /></span> omim': <Bio.EUtils.Config.DatabaseInfo instance at 0x32c58c0>, 'pubmed<span class="variable-linewrap"><img src="crarr.png" alt="\" /></span> ': <Bio.EUtils.Config.DatabaseInfo instance at 0x32c5fc8>, 'genome': <<span class="variable-linewrap"><img src="crarr.png" alt="\" /></span> Bio.EUtils.Config.DatabaseInfo instance at 0x32c5d88>, 'sequences': <B<span class="variable-linewrap"><img src="crarr.png" alt="\" /></span> io.EUtils.Config.DatabaseInfo instance at 0x32c5e18>, 'popset': <Bio.E<span class="variable-linewrap"><img src="crarr.png" alt="\" /></span> Utils.Config.DatabaseInfo instance at 0x32c5ef0>, 'protein': <Bio.EUti<span class="variable-linewrap"><img src="crarr.png" alt="\" /></span> ls.Config.DatabaseInfo instance at 0x32c5cf8>, 'gene': <Bio.EUtils.Con<span class="variable-linewrap"><img src="crarr.png" alt="\" /></span> fig.DatabaseInfo instance at 0x32c5b48>, 'nucleotide': <Bio.EUtils.Con<span class="variable-linewrap"><img src="crarr.png" alt="\" /></span> <code class="variable-ellipsis">...</code> </pre></td></tr></table> </dd> </dl> </td></tr></table> </div> <br /> <!-- ==================== NAVIGATION BAR ==================== --> <table class="navbar" border="0" width="100%" cellpadding="0" bgcolor="#a0c0ff" cellspacing="0"> <tr valign="middle"> <!-- Tree link --> <th> <a href="module-tree.html">Trees</a> </th> <!-- Index link --> <th> <a href="identifier-index.html">Indices</a> </th> <!-- Help link --> <th> <a href="help.html">Help</a> </th> <th class="navbar" width="100%"></th> </tr> </table> <table border="0" cellpadding="0" cellspacing="0" width="100%%"> <tr> <td align="left" class="footer"> 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