JAL-3174 backout un-needed stacktrace for exception raised during testing (since...

[jalview.git] / resources / embl_mapping.xml

diff --git a/resources/embl_mapping.xml b/resources/embl_mapping.xml
index 41ee304..3b80821 100644 (file)
--- a/resources/embl_mapping.xml
+++ b/resources/embl_mapping.xml
@@ -28,6 +28,9 @@
        -->
        <class name="jalview.datamodel.xdb.embl.EmblFile">
                <map-to xml="ROOT"/>
+               <field name="text" type="string">
+                       <bind-xml node="text"/>
+               </field>
                <field name="entries" type="jalview.datamodel.xdb.embl.EmblEntry" collection="vector">
                        <bind-xml name="entry"/>
                </field>
@@ -39,12 +42,9 @@
                <field name="accession" type="string">
                        <bind-xml name="accession" node="attribute"/>
                </field>
-               <field name="lastUpdated" type="string">
-                       <bind-xml name="lastUpdated" node="attribute"/>
-               </field>
                <!-- 
-                   in EMBL XML 1.2 sequence/@version becomes entry/version 
-                   entry/@version becomes entry/@entryVersion
+                   in EMBL XML 1.2 sequence/@version became entry/version 
+                   entry/@version became entry/@entryVersion
                -->
                <field name="sequenceVersion" type="string">
                        <bind-xml name="version" node="attribute"/>
@@ -52,6 +52,12 @@
                <field name="entryVersion" type="string">
                        <bind-xml name="entryVersion" node="attribute"/>
                </field>
+               <field name="dataClass" type="string">
+                       <bind-xml name="dataClass" node="attribute"/>
+               </field>
+               <field name="taxonomicDivision" type="string">
+                       <bind-xml name="taxonomicDivision" node="attribute"/>
+               </field>
                <field name="moleculeType" type="string">
                        <bind-xml name="moleculeType" node="attribute"/>
                </field>
@@ -61,13 +67,19 @@
                <field name="topology" type="string">
                        <bind-xml name="topology" node="attribute" location="type"/>
                </field>
-               <field name="rCreated" type="string">
-                       <bind-xml name="releaseCreated" node="attribute"/>
+               <field name="firstPublicDate" type="string">
+                       <bind-xml name="firstPublic" node="attribute"/>
                </field>
-               <field name="rLastUpdated" type="string">
-                       <bind-xml name="releaseLastUpdated" node="attribute"/>
+               <field name="firstPublicRelease" type="string">
+                       <bind-xml name="firstPublicRelease" node="attribute"/>
                </field>
-               <field name="desc" type="string">
+               <field name="lastUpdatedDate" type="string">
+                       <bind-xml name="lastUpdated" node="attribute"/>
+               </field>
+               <field name="lastUpdatedRelease" type="string">
+                       <bind-xml name="lastUpdatedRelease" node="attribute"/>
+               </field>
+               <field name="description" type="string">
                        <bind-xml name="description" node="element"/>
                </field>
                <field name="keywords" type="string" collection="vector">
@@ -124,40 +136,4 @@
                        <bind-xml name="value" node="element"/>
                </field>
        </class>
-       <class name="jalview.datamodel.xdb.embl.EmblFeatureLocations">
-               <field name="locationType" type="string">
-                       <bind-xml name="type" node="attribute"/>
-               </field>
-               <field name="locationComplement" type="boolean">
-                       <bind-xml name="complement" node="attribute"/>
-               </field>
-               <field name="locElements" type="jalview.datamodel.xdb.embl.EmblFeatureLocElement" collection="vector">
-                       <bind-xml name="locationElement"/>
-               </field>
-       </class>
-       <class name="jalview.datamodel.xdb.embl.EmblFeatureLocElement">
-               <field name="type" type="string">
-                       <bind-xml name="type" node="attribute"/>
-               </field>
-               <field name="accession" type="string">
-                       <bind-xml name="accession" node="attribute"/>                   
-               </field>
-               <field name="version" type="string">
-                       <bind-xml name="version" node="attribute"/>
-               </field>
-               <field name="complement" type="boolean">
-                       <bind-xml name="complement"/>
-               </field>
-               <field name="basePositions" type="jalview.datamodel.xdb.embl.BasePosition" collection="array">
-                       <bind-xml name="basePosition" node="element"/>
-               </field>
-       </class>
-       <class name="jalview.datamodel.xdb.embl.BasePosition">
-               <field name="type">
-                       <bind-xml name="type" node="attribute"/>
-               </field>
-               <field name="pos">
-                       <bind-xml node="text"/>
-               </field>
-       </class>
 </mapping>