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<!DOCTYPE html
PUBLIC "-//W3C//DTD XHTML 1.0 Transitional//EN"
"http://www.w3.org/TR/xhtml1/DTD/xhtml1-transitional.dtd">
<html xmlns="http://www.w3.org/1999/xhtml" lang="en-US" xml:lang="en-US">
<head>
<title>Description of Schema</title>
<meta name="generator" content="SQL::Translator::Producer::HTML" />
<meta http-equiv="Content-Type" content="text/html; charset=iso-8859-1" />
</head>
<body>
<h1 class="SchemaDescription">
Description of Schema
</h1>
<hr />
<!--
Table listing (2 tables)
-->
<a name="top" />
<table width="100%" class="LinkTable">
<tr>
<td class="LinkTableCell"><h2 class="LinkTableTitle">
Tables
</h2></td>
</tr>
<!--
Start link to table 'db'
-->
<tr class="LinkTableRow">
<td class="LinkTableCell"><a id="db-link" href="#db">db</a></td>
</tr>
<!--
End link to table 'db'
-->
<!--
Start link to table 'dbxref'
-->
<tr class="LinkTableRow">
<td class="LinkTableCell"><a id="dbxref-link" href="#dbxref">dbxref</a></td>
</tr>
<!--
End link to table 'dbxref'
-->
</table>
<!--
Starting table 'db'
-->
<a name="db" />
<table class="TableHeader" width="100%">
<tr class="TableHeaderRow">
<td class="TableHeaderCell"><h3>
db
</h3></td> <a name="db"> <td class="TableHeaderCell" align="right"><a href="#top">Top</a></td>
</tr>
</table>
<b>
Comments:
</b>
<br />
<em>
<br />
================================================ <br />
TABLE: db <br />
================================================ <br />
A database authority. Typical databases in
bioinformatics are FlyBase, GO, UniProt, NCBI, MGI, etc. The authority
is generally known by this shortened form, which is unique within the
bioinformatics and biomedical realm. To Do - add support for URIs,
URNs (e.g. LSIDs). We can do this by treating the URL as a URI -
however, some applications may expect this to be resolvable - to be
decided.
</em>
<table border="1">
<tr>
<th class="FieldHeader">
Field Name
</th>
<th class="FieldHeader">
Data Type
</th>
<th class="FieldHeader">
Size
</th>
<th class="FieldHeader">
Default Value
</th>
<th class="FieldHeader">
Other
</th>
<th class="FieldHeader">
Foreign Key
</th>
</tr>
<tr class="tr-odd">
<td class="FieldCellName"><a name="db-db_id">db_id</a></td> <td class="FieldCellType">integer</td> <td class="FieldCellSize">20</td> <td class="FieldCellDefault"></td> <td class="FieldCellOther">PRIMARY KEY, NOT NULL</td> <td class="FieldCellFK"></td>
</tr>
<tr class="tr-even">
<td class="FieldCellName"><a name="db-name">name</a></td> <td class="FieldCellType">varchar</td> <td class="FieldCellSize">255</td> <td class="FieldCellDefault"></td> <td class="FieldCellOther">UNIQUE, NOT NULL</td> <td class="FieldCellFK"></td>
</tr>
<tr class="tr-odd">
<td class="FieldCellName"><a name="db-description">description</a></td> <td class="FieldCellType">varchar</td> <td class="FieldCellSize">255</td> <td class="FieldCellDefault">NULL</td> <td class="FieldCellOther">contact_id bigint,
foreign key (contact_id) references contact (contact_id) on delete cascade INITIALLY DEFERRED,</td> <td class="FieldCellFK"></td>
</tr>
<tr class="tr-even">
<td class="FieldCellName"><a name="db-urlprefix">urlprefix</a></td> <td class="FieldCellType">varchar</td> <td class="FieldCellSize">255</td> <td class="FieldCellDefault">NULL</td> <td class="FieldCellOther"></td> <td class="FieldCellFK"></td>
</tr>
<tr class="tr-odd">
<td class="FieldCellName"><a name="db-url">url</a></td> <td class="FieldCellType">varchar</td> <td class="FieldCellSize">255</td> <td class="FieldCellDefault">NULL</td> <td class="FieldCellOther"></td> <td class="FieldCellFK"></td>
</tr>
</table>
<h3>
Constraints
</h3>
<table border="1">
<tr class="IndexRow">
<th>
Type
</th>
<th>
Fields
</th>
</tr>
<tr class="IndexCell">
<td>NOT NULL</td><td>db_id</td>
</tr>
<tr class="IndexCell">
<td>NOT NULL</td><td>name</td>
</tr>
<tr class="IndexCell">
<td>UNIQUE</td><td>name</td>
</tr>
</table>
<hr />
<!--
Starting table 'dbxref'
-->
<a name="dbxref" />
<table class="TableHeader" width="100%">
<tr class="TableHeaderRow">
<td class="TableHeaderCell"><h3>
dbxref
</h3></td> <a name="dbxref"> <td align="right" class="TableHeaderCell"><a href="#top">Top</a></td>
</tr>
</table>
<b>
Comments:
</b>
<br />
<em>
<br />
================================================ <br />
TABLE: dbxref <br />
================================================ <br />
A unique, global, public, stable identifier. Not necessarily an external reference - can reference data items inside the particular chado instance being used. Typically a row in a table can be uniquely identified with a primary identifier (called dbxref_id); a table may also have secondary identifiers (in a linking table <T>_dbxref). A dbxref is generally written as <DB>:<ACCESSION> or as <DB>:<ACCESSION>:<VERSION>.
</em>
<table border="1">
<tr>
<th class="FieldHeader">
Field Name
</th>
<th class="FieldHeader">
Data Type
</th>
<th class="FieldHeader">
Size
</th>
<th class="FieldHeader">
Default Value
</th>
<th class="FieldHeader">
Other
</th>
<th class="FieldHeader">
Foreign Key
</th>
</tr>
<tr class="tr-odd">
<td class="FieldCellName"><a name="dbxref-dbxref_id">dbxref_id</a></td> <td class="FieldCellType">integer</td> <td class="FieldCellSize">20</td> <td class="FieldCellDefault"></td> <td class="FieldCellOther">PRIMARY KEY, NOT NULL</td> <td class="FieldCellFK"></td>
</tr>
<tr class="tr-even">
<td class="FieldCellName"><a name="dbxref-db_id">db_id</a></td> <td class="FieldCellType">integer</td> <td class="FieldCellSize">20</td> <td class="FieldCellDefault"></td> <td class="FieldCellOther">UNIQUE, NOT NULL</td> <td class="FieldCellFK"><a href="#db-db_id">db.db_id</a></td>
</tr>
<tr class="tr-odd">
<td class="FieldCellName"><a name="dbxref-accession">accession</a></td> <td class="FieldCellType">varchar</td> <td class="FieldCellSize">1024</td> <td class="FieldCellDefault"></td> <td class="FieldCellOther">UNIQUE, NOT NULL, The local part of the identifier. Guaranteed by the db authority to be unique for that db. </td> <td class="FieldCellFK"></td>
</tr>
<tr class="tr-even">
<td class="FieldCellName"><a name="dbxref-version">version</a></td> <td class="FieldCellType">varchar</td> <td class="FieldCellSize">255</td> <td class="FieldCellDefault"></td> <td class="FieldCellOther">UNIQUE, NOT NULL</td> <td class="FieldCellFK"></td>
</tr>
<tr class="tr-odd">
<td class="FieldCellName"><a name="dbxref-description">description</a></td> <td class="FieldCellType">text</td> <td class="FieldCellSize">64000</td> <td class="FieldCellDefault"></td> <td class="FieldCellOther"></td> <td class="FieldCellFK"></td>
</tr>
</table>
<h3>
Indices
</h3>
<table border="1">
<tr class="IndexRow">
<th>
Name
</th>
<th>
Fields
</th>
</tr>
<tr class="IndexCell">
<td>dbxref_idx1</td><td>db_id</td>
</tr>
<tr class="IndexCell">
<td>dbxref_idx2</td><td>accession</td>
</tr>
<tr class="IndexCell">
<td>dbxref_idx3</td><td>version</td>
</tr>
</table>
<h3>
Constraints
</h3>
<table border="1">
<tr class="IndexRow">
<th>
Type
</th>
<th>
Fields
</th>
</tr>
<tr class="IndexCell">
<td>NOT NULL</td><td>dbxref_id</td>
</tr>
<tr class="IndexCell">
<td>NOT NULL</td><td>db_id</td>
</tr>
<tr class="IndexCell">
<td>FOREIGN KEY</td><td>db_id</td>
</tr>
<tr class="IndexCell">
<td>NOT NULL</td><td>accession</td>
</tr>
<tr class="IndexCell">
<td>NOT NULL</td><td>version</td>
</tr>
<tr class="IndexCell">
<td>UNIQUE</td><td>db_id, accession, version</td>
</tr>
</table>
<hr />
Created by <a href="http://sqlfairy.sourceforge.net">
SQL::Translator 0.11020</a>
</body>
</html>
|
