extend XML model for graduated feature colours, group associated manual/auto annotati...

[jalview.git] / schemas / jalview.xsd

diff --git a/schemas/jalview.xsd b/schemas/jalview.xsd
index a0a167c..99a4e10 100755 (executable)
--- a/schemas/jalview.xsd
+++ b/schemas/jalview.xsd
@@ -93,7 +93,14 @@
                                                <xs:attribute name="textCol2" type="xs:int"/>
                                                <xs:attribute name="textColThreshold" type="xs:int"/>
                                                <xs:attribute name="showUnconserved" type="xs:boolean" use="optional"/>
-                                               
+                                               <xs:attribute name="ignoreGapsinConsensus" type="xs:boolean" use="optional" default="true"/>
+                                               <xs:attribute name="showConsensusHistogram" type="xs:boolean" use="optional" default="true"/>
+                                               <xs:attribute name="showConsensusProfile" type="xs:boolean" use="optional" default="false"/>
+                                               <xs:attribute name="id" type="xs:string" use="optional"><xs:annotation>
+                                               <xs:documentation>
+                                               Optional sequence group ID (only needs to be unique for this alignment)
+                                               </xs:documentation>
+                                               </xs:annotation></xs:attribute>
                                        </xs:complexType>
                                </xs:element>
                                <xs:element name="Viewport" maxOccurs="unbounded">
@@ -126,12 +133,23 @@
                                                <xs:attribute name="rightAlignIds" type="xs:boolean"/>
                                                <xs:attribute name="showText" type="xs:boolean"/>
                                                <xs:attribute name="showColourText" type="xs:boolean"/>
-                                               <xs:attribute name="showUnconserved" type="xs:boolean" use="optional"/>
+                                               <xs:attribute name="showUnconserved" type="xs:boolean" use="optional" default="false"/>
                                                <xs:attribute name="showBoxes" type="xs:boolean"/>
                                                <xs:attribute name="wrapAlignment" type="xs:boolean"/>
                                                <xs:attribute name="renderGaps" type="xs:boolean"/>
                                                <xs:attribute name="showSequenceFeatures" type="xs:boolean"/>
+                                               <xs:attribute name="showNPfeatureTooltip" type="xs:boolean" use="optional"/>
+                                               <xs:attribute name="showDbRefTooltip" type="xs:boolean" use="optional"/>
+                                               <xs:attribute name="followHighlight" type="xs:boolean" use="optional" default="true"/>
+                                               <xs:attribute name="followSelection" type="xs:boolean" use="optional" default="true"/>
                                                <xs:attribute name="showAnnotation" type="xs:boolean"/>
+                                               <xs:attribute name="centreColumnLabels" type="xs:boolean" use="optional" default="false"/>
+                                               <xs:attribute name="showGroupConservation" type="xs:boolean" use="optional" default="false"/>
+                                               <xs:attribute name="showGroupConsensus" type="xs:boolean" use="optional" default="false"/>
+                                               <xs:attribute name="showConsensusHistogram" type="xs:boolean" use="optional" default="true"/>
+                                               <xs:attribute name="showConsensusProfile" type="xs:boolean" use="optional" default="false"/>
+                                               <xs:attribute name="ignoreGapsinConsensus" type="xs:boolean" use="optional" default="true"/>
+                                               
                                                <xs:attribute name="xpos" type="xs:int"/>
                                                <xs:attribute name="ypos" type="xs:int"/>
                                                <xs:attribute name="width" type="xs:int"/>
@@ -206,6 +224,10 @@
                                                                        <xs:attribute name="threshstate" type="xs:int" use="optional">
                                                                        <xs:annotation><xs:documentation>threshold type for graduated feature colour</xs:documentation>
                                                                        </xs:annotation></xs:attribute>
+                                                                       <xs:attribute name="max" type="xs:float" use="optional"/>
+                                                                       <xs:attribute name="min" type="xs:float" use="optional"/>
+                                                                       <xs:attribute name="colourByLabel" type="xs:boolean" use="optional"/>
+                                                                       <xs:attribute name="autoScale" type="xs:boolean" use="optional"/>
                                                        </xs:complexType>
                                                        </xs:element>
                                                        <xs:element name="group" minOccurs="0" maxOccurs="unbounded">