X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=schemas%2Fvamsas.xsd;h=65a1307ea4ee955ddaed2da58a5121728920bf42;hb=refs%2Fheads%2FJalview-BH%2FJAL-3048_exportSettingsrefactor;hp=c144d9781e0d7db6d5d6eb3810916a6a6df02482;hpb=8f4232f9c59b742ff87419b41a8c091f15a17fbf;p=jalview.git

diff --git a/schemas/vamsas.xsd b/schemas/vamsas.xsd
index c144d97..65a1307 100755
--- a/schemas/vamsas.xsd
+++ b/schemas/vamsas.xsd
@@ -1,20 +1,21 @@
 <?xml version="1.0" encoding="UTF-8"?>
 <!--
-   * Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
-   * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
-   * 
-   * 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/>.
+ * 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.
 -->
 <!-- edited with XMLSpy v2006 sp1 U (http://www.altova.com) by ioh[ (o[ih[oh) -->
 <xs:schema xmlns:xs="http://www.w3.org/2001/XMLSchema" xmlns:vamsas="www.vamsas.ac.uk/jalview/version2" targetNamespace="www.vamsas.ac.uk/jalview/version2" elementFormDefault="qualified" attributeFormDefault="unqualified">
@@ -184,6 +185,12 @@
 						<xs:attribute name="colour" type="xs:int" />
 					</xs:complexType>
 				</xs:element>
+				<xs:element name="property" minOccurs="0" maxOccurs="unbounded">
+					<xs:complexType>
+						<xs:attribute name="name" type="xs:string" />
+						<xs:attribute name="value" type="xs:string" />
+					</xs:complexType>
+				</xs:element>
 			</xs:sequence>
 			<xs:attribute name="graph" type="xs:boolean" use="required" />
 			<xs:attribute name="graphType" type="xs:int" use="optional" />
@@ -195,6 +202,8 @@
 				use="optional" />
 			<xs:attribute name="graphGroup" type="xs:int"
 				use="optional" />
+			<xs:attribute name="graphHeight" type="xs:int" use="optional">
+			<xs:annotation><xs:documentation>height in pixels for the graph if this is a graph-type annotation.</xs:documentation></xs:annotation></xs:attribute>
 			<xs:attribute name="id" type="xs:string" use="optional" />
 			<xs:attribute name="scoreOnly" type="xs:boolean"
 				use="optional" default="false" />
@@ -212,6 +221,11 @@
 			<xs:attribute name="autoCalculated" type="xs:boolean" use="optional" default="false">
 			<xs:annotation><xs:documentation>is an autocalculated annotation row</xs:documentation>
 			</xs:annotation></xs:attribute>
+			<xs:attribute name="belowAlignment" type="xs:boolean" use="optional" default="true">
+			<xs:annotation><xs:documentation>is to be shown below the alignment - introduced in Jalview 2.8 for visualizing T-COFFEE alignment scores</xs:documentation></xs:annotation></xs:attribute>
+			<xs:attribute name="calcId" type="xs:string" use="optional">
+			<xs:annotation><xs:documentation>Optional string identifier used to group sets of annotation produced by a particular calculation. Values are opaque strings but have semantic meaning to Jalview's renderer, data importer and calculation system.</xs:documentation></xs:annotation>
+			</xs:attribute>
 		</xs:complexType>
 	</xs:element>	
 	<xs:element name="SequenceSet">