X-Git-Url: http://source.jalview.org/gitweb/?p=jalview.git;a=blobdiff_plain;f=resources%2Funiprot_mapping.xml;fp=resources%2Funiprot_mapping.xml;h=0000000000000000000000000000000000000000;hp=832d3e537317c7041b71417581a274ab38bf7ab8;hb=fab0afc9e1e7a5ca460f0cbd48545536f989a435;hpb=b7e521af667bdc18f9071075d1face56367eab69

diff --git a/resources/uniprot_mapping.xml b/resources/uniprot_mapping.xml
deleted file mode 100755
index 832d3e5..0000000
--- a/resources/uniprot_mapping.xml
+++ /dev/null
@@ -1,103 +0,0 @@
-<?xml version="1.0"?>
-<!--
- * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
- * Copyright (C) $$Year-Rel$$ The Jalview Authors
- * 
- * This file is part of Jalview.
- * 
- * Jalview is free software: you can redistribute it and/or
- * modify it under the terms of the GNU General Public License 
- * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
- *  
- * Jalview is distributed in the hope that it will be useful, but 
- * WITHOUT ANY WARRANTY; without even the implied warranty 
- * of MERCHANTABILITY or FITNESS FOR A PARTICULAR 
- * PURPOSE.  See the GNU General Public License for more details.
- * 
- * You should have received a copy of the GNU General Public License along with Jalview.  If not, see <http://www.gnu.org/licenses/>.
- * The Jalview Authors are detailed in the 'AUTHORS' file.
--->
-<mapping>
-	<class name="jalview.datamodel.xdb.uniprot.UniprotFile">
-                 <map-to xml="uniprot"/>               
-                 <field name="UniprotEntries" type="jalview.datamodel.xdb.uniprot.UniprotEntry" collection="vector">
-		      <bind-xml name="entry"/>
-		 </field>		
-        </class>
-		 
-	 <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.xdb.uniprot.UniprotProteinName"/>
-	    <field name="UniprotSequence" type="jalview.datamodel.xdb.uniprot.UniprotSequence">
-	      	<bind-xml name="sequence"/> 
-	    </field>
-	    <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.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.xdb.uniprot.UniprotProteinName">
-	 	<field name="name" type="string" collection="vector">
-	 		<bind-xml name="name"/>
-	 	</field>	 	
-	 </class>
-	 -->
-	 
-	 <class name="jalview.datamodel.xdb.uniprot.UniprotFeature">
-	 	<field name="type">
-	 		<bind-xml node="attribute"/>
-	 	</field>
-	 	<field name="description">
-			 <bind-xml node="attribute"/>
-	 	</field>
-	 	<field name="status">
-			<bind-xml node="attribute"/>
-	 	</field>
-	 	<field name="position">
-	 	 <bind-xml name="position" node="attribute" location="location/position"/>
-	 	</field>
-		<field name="begin">
-		 <bind-xml name="position" node="attribute" location="location/begin"/>
-	 	</field>
-    <field name="end">
-      <bind-xml name="position" node="attribute" location="location/end"/>
-    </field>
-    <field name="variation">
-     <bind-xml name="variation"/>
-    </field>
-    <field name="original">
-     <bind-xml name="original"/>
-    </field>
-	 </class>
-	
-          <class name="jalview.datamodel.xdb.uniprot.UniprotSequence">
-		     <field name="content" type="string">
-		        <bind-xml name="sequence" node="text"/>
-		     </field>
-	 </class>
-	 
-	 <class name="jalview.datamodel.PDBEntry">
-	 	<field name="type"><bind-xml node="attribute"/></field>
-	 	<field name="id"><bind-xml node="attribute"/></field>
-	 	<field name="props" collection="hashtable">
-			<bind-xml name="property">
-			   <class name="org.exolab.castor.mapping.MapItem">
-			      <field name="key">
-				<bind-xml name="type" node="attribute"/>
-			      </field>
-			      <field name="value">
-			      	<bind-xml node="attribute"/>
-			      	</field>
-			   </class>
-			</bind-xml>
-		</field>
-	 </class>
-
-</mapping>