X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=schemas%2Fvamsas.xsd;h=3dd7d0d37e7ae61b2c76756a735726310b068dc6;hb=76cba6f16a2167e7f4c1a8d02afe351108e503b6;hp=e32427dd60c86e63aee3dc8185adc71c55574d92;hpb=2de8acfae59aced665e4c37ad0f7dcc2ed68818e;p=jalview.git

diff --git a/schemas/vamsas.xsd b/schemas/vamsas.xsd
index e32427d..3dd7d0d 100755
--- a/schemas/vamsas.xsd
+++ b/schemas/vamsas.xsd
@@ -1,23 +1,21 @@
 <?xml version="1.0" encoding="UTF-8"?>
 <!--
-  Jalview - A Sequence Alignment Editor and Viewer (Development Version 2.4.1)
-  Copyright (C) 2009 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle
-  
-  This program 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 2
-  of the License, or (at your option) any later version.
-  
-  This program 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 this program; if not, write to the Free Software
-  Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA  02110-1301, USA
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
+ * 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/>.
 -->
-
 <!-- 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">
 	<xs:complexType name="VAMSAS">
@@ -174,26 +172,48 @@
 	<xs:element name="Annotation">
 		<xs:complexType>
 			<xs:sequence>
-				<xs:element ref="vamsas:annotationElement" minOccurs="0" maxOccurs="unbounded"/>
-				<xs:element name="label" type="xs:string"/>
-				<xs:element name="description" type="xs:string" minOccurs="0"/>
+				<xs:element ref="vamsas:annotationElement" minOccurs="0"
+					maxOccurs="unbounded" />
+				<xs:element name="label" type="xs:string" />
+				<xs:element name="description" type="xs:string"
+					minOccurs="0" />
 				<xs:element name="thresholdLine" minOccurs="0">
 					<xs:complexType>
-						<xs:attribute name="label" type="xs:string"/>
-						<xs:attribute name="value" type="xs:float"/>
-						<xs:attribute name="colour" type="xs:int"/>
+						<xs:attribute name="label" type="xs:string" />
+						<xs:attribute name="value" type="xs:float" />
+						<xs:attribute name="colour" type="xs:int" />
 					</xs:complexType>
 				</xs:element>
 			</xs:sequence>
-			<xs:attribute name="graph" type="xs:boolean" use="required"/>
-			<xs:attribute name="graphType" type="xs:int" use="optional"/>
-			<xs:attribute name="sequenceRef" type="xs:string" use="optional"/>
-			<xs:attribute name="graphColour" type="xs:int" use="optional"/>
-			<xs:attribute name="graphGroup" type="xs:int" use="optional"/>
-			<xs:attribute name="id" type="xs:string" use="optional"/>
-			<xs:attribute name="scoreOnly" type="xs:boolean" use="optional" default="false"/>
-			<xs:attribute name="score" type="xs:double" use="optional"/>
-			<xs:attribute name="visible" type="xs:boolean" use="optional"/>
+			<xs:attribute name="graph" type="xs:boolean" use="required" />
+			<xs:attribute name="graphType" type="xs:int" use="optional" />
+			<xs:attribute name="sequenceRef" type="xs:string"
+				use="optional" />
+			<xs:attribute name="groupRef" type="xs:string"
+				use="optional" />
+			<xs:attribute name="graphColour" type="xs:int"
+				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" />
+			<xs:attribute name="score" type="xs:double" use="optional" />
+			<xs:attribute name="visible" type="xs:boolean"
+				use="optional" />
+			<xs:attribute name="centreColLabels" type="xs:boolean"
+				use="optional" />
+			<xs:attribute name="scaleColLabels" type="xs:boolean"
+				use="optional" />
+			<xs:attribute name="showAllColLabels" type="xs:boolean"
+				use="optional" />
+
+
+			<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:complexType>
 	</xs:element>	
 	<xs:element name="SequenceSet">