<?xml version="1.0"?>
<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.2b1)
- * Copyright (C) 2014 The Jalview Authors
+ * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
+ * Copyright (C) $$Year-Rel$$ The Jalview Authors
*
* This file is part of Jalview.
*
* The Jalview Authors are detailed in the 'AUTHORS' file.
-->
<mapping>
- <class name="jalview.datamodel.UniprotFile">
+ <class name="jalview.datamodel.xdb.uniprot.UniprotFile">
<map-to xml="uniprot"/>
- <field name="UniprotEntries" type="jalview.datamodel.UniprotEntry" collection="vector">
+ <field name="UniprotEntries" type="jalview.datamodel.xdb.uniprot.UniprotEntry" collection="vector">
<bind-xml name="entry"/>
</field>
</class>
- <class name="jalview.datamodel.UniprotEntry">
+ <class name="jalview.datamodel.xdb.uniprot.UniprotEntry">
<field name="name" type="string" collection="vector"/>
<field name="accession" type="string" collection="vector"/>
- <field name="protein" type="jalview.datamodel.UniprotProteinName"/>
- <field name="UniprotSequence" type="jalview.datamodel.UniprotSequence">
+ <field name="protein" type="jalview.datamodel.xdb.uniprot.UniprotProteinName"/>
+ <field name="UniprotSequence" type="jalview.datamodel.xdb.uniprot.UniprotSequence">
<bind-xml name="sequence"/>
</field>
- <field name="feature" type="jalview.datamodel.SequenceFeature" collection="vector"/>
+ <field name="feature" type="jalview.datamodel.xdb.uniprot.UniprotFeature" collection="vector"/>
<field name="dbReference" type="jalview.datamodel.PDBEntry" collection="vector"/>
</class>
- <class name="jalview.datamodel.UniprotProteinName">
+ <class name="jalview.datamodel.xdb.uniprot.UniprotProteinName">
<field name="name" collection="vector" type="string">
<bind-xml name="fullName" location="recommendedName" node="element"/>
</field>
</class>
<!-- uniprot protein name is now a collection of collections - the INCLUDES and CONTAINS entries of the uniprot
record. This means this doesn't exist anymore...
- <class name="jalview.datamodel.UniprotProteinName">
+ <class name="jalview.datamodel.xdb.uniprot.UniprotProteinName">
<field name="name" type="string" collection="vector">
<bind-xml name="name"/>
</field>
</class>
-->
- <class name="jalview.datamodel.SequenceFeature">
+ <class name="jalview.datamodel.xdb.uniprot.UniprotFeature">
<field name="type">
<bind-xml node="attribute"/>
</field>
</field>
</class>
- <class name="jalview.datamodel.UniprotSequence">
+ <class name="jalview.datamodel.xdb.uniprot.UniprotSequence">
<field name="content" type="string">
<bind-xml name="sequence" node="text"/>
</field>
<class name="jalview.datamodel.PDBEntry">
<field name="type"><bind-xml node="attribute"/></field>
<field name="id"><bind-xml node="attribute"/></field>
- <field name="property" collection="hashtable">
+ <field name="props" collection="hashtable">
<bind-xml name="property">
<class name="org.exolab.castor.mapping.MapItem">
<field name="key">