-<?xml version="1.0" encoding="UTF-8"?>\r
-<!--\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle\r
- * \r
- * This file is part of Jalview.\r
- * \r
- * Jalview is free software: you can redistribute it and/or\r
- * modify it under the terms of the GNU General Public License \r
- * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.\r
- * \r
- * Jalview is distributed in the hope that it will be useful, but \r
- * WITHOUT ANY WARRANTY; without even the implied warranty \r
- * of MERCHANTABILITY or FITNESS FOR A PARTICULAR \r
- * PURPOSE. See the GNU General Public License for more details.\r
- * \r
- * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.\r
--->\r
-<xs:schema xmlns:xs="http://www.w3.org/2001/XMLSchema"\r
- xmlns:vamsas="www.vamsas.org"\r
- xmlns:jalview="www.jalview.org/colours"\r
- xmlns:jv="www.jalview.org" \r
- targetNamespace="www.jalview.org" elementFormDefault="qualified" attributeFormDefault="unqualified">\r
- \r
- <xs:import schemaLocation="vamsasJvV1.xsd" namespace="www.vamsas.org"/>\r
- <xs:import schemaLocation="jalviewUserColours.xsd" namespace="www.jalview.org/colours"/>\r
- <xs:complexType name="JalviewModel">\r
- <xs:sequence>\r
- <xs:element name="creationDate" type="xs:dateTime"/>\r
- <xs:element name="version" type="xs:string"/>\r
- <xs:element name="vamsasModel" type="vamsas:VAMSAS"/>\r
- <xs:sequence>\r
- <xs:element name="JSeq" maxOccurs="unbounded">\r
- <xs:complexType>\r
- <xs:sequence>\r
- <xs:element name="features" type="jv:feature" minOccurs="0" maxOccurs="unbounded"/>\r
- <xs:element name="pdbids" type="jv:pdbentry" minOccurs="0" maxOccurs="unbounded"/>\r
- </xs:sequence>\r
- \r
- <xs:attribute name="colour" type="xs:int" use="optional"/>\r
- <xs:attribute name="start" type="xs:int" use="required"/>\r
- <xs:attribute name="end" type="xs:int" use="required"/>\r
- <xs:attribute name="id" type="xs:int" use="required"/>\r
- </xs:complexType>\r
- </xs:element>\r
- <xs:element name="JGroup" minOccurs="0" maxOccurs="unbounded">\r
- <xs:complexType>\r
- <xs:sequence minOccurs="1">\r
- <xs:element name="seq" maxOccurs="unbounded" type="xs:int"/>\r
- </xs:sequence>\r
- <xs:attribute name="start" type="xs:int"/>\r
- <xs:attribute name="end" type="xs:int"/>\r
- <xs:attribute name="name" type="xs:string"/>\r
- <xs:attribute name="colour" type="xs:string"/>\r
- <xs:attribute name="consThreshold" type="xs:int"/>\r
- <xs:attribute name="pidThreshold" type="xs:int"/>\r
- <xs:attribute name="outlineColour" type="xs:int"/>\r
- <xs:attribute name="displayBoxes" type="xs:boolean"/>\r
- <xs:attribute name="displayText" type="xs:boolean"/>\r
- <xs:attribute name="colourText" type="xs:boolean"/>\r
- </xs:complexType>\r
- </xs:element>\r
- <xs:element name="Viewport" maxOccurs="unbounded">\r
- <xs:complexType>\r
- <xs:attribute name="conservationSelected" type="xs:boolean"/>\r
- <xs:attribute name="pidSelected" type="xs:boolean"/>\r
- <xs:attribute name="bgColour" type="xs:string"/>\r
- <xs:attribute name="consThreshold" type="xs:int"/>\r
- <xs:attribute name="pidThreshold" type="xs:int"/>\r
- <xs:attribute name="title" type="xs:string"/>\r
- <xs:attribute name="showFullId" type="xs:boolean"/>\r
- <xs:attribute name="showText" type="xs:boolean"/>\r
- <xs:attribute name="showColourText" type="xs:boolean"/>\r
- <xs:attribute name="showBoxes" type="xs:boolean"/>\r
- <xs:attribute name="wrapAlignment" type="xs:boolean"/>\r
- <xs:attribute name="renderGaps" type="xs:boolean"/>\r
- <xs:attribute name="showSequenceFeatures" type="xs:boolean"/>\r
- <xs:attribute name="showAnnotation" type="xs:boolean"/>\r
- <xs:attribute name="showConservation" type="xs:boolean"/>\r
- <xs:attribute name="showQuality" type="xs:boolean"/>\r
- <xs:attribute name="showIdentity" type="xs:boolean"/>\r
- <xs:attribute name="xpos" type="xs:int"/>\r
- <xs:attribute name="ypos" type="xs:int"/>\r
- <xs:attribute name="width" type="xs:int"/>\r
- <xs:attribute name="height" type="xs:int"/>\r
- <xs:attribute name="startRes" type="xs:int"/>\r
- <xs:attribute name="startSeq" type="xs:int"/>\r
- <xs:attribute name="fontName" type="xs:string"/>\r
- <xs:attribute name="fontSize" type="xs:int"/>\r
- <xs:attribute name="fontStyle" type="xs:int"/>\r
- </xs:complexType>\r
- </xs:element>\r
- <xs:element name="UserColours" minOccurs="0" maxOccurs="unbounded">\r
- <xs:complexType>\r
- <xs:sequence minOccurs="1">\r
- <xs:element name="UserColourScheme" type="jalview:JalviewUserColours"/>\r
- </xs:sequence>\r
- <xs:attribute name="id" type="xs:string"/>\r
- </xs:complexType>\r
- </xs:element>\r
- <xs:element name="tree" minOccurs="0" maxOccurs="unbounded">\r
- <xs:complexType>\r
- <xs:sequence minOccurs="0" maxOccurs="1">\r
- <xs:element name="title" type="xs:string"/>\r
- <xs:element name="newick" type="xs:string"/>\r
- </xs:sequence>\r
- <xs:attribute name="width" type="xs:int"/>\r
- <xs:attribute name="height" type="xs:int"/>\r
- <xs:attribute name="xpos" type="xs:int"/>\r
- <xs:attribute name="ypos" type="xs:int"/>\r
- <xs:attribute name="fontName" type="xs:string"/>\r
- <xs:attribute name="fontSize" type="xs:int"/>\r
- <xs:attribute name="fontStyle" type="xs:int"/>\r
- <xs:attribute name="threshold" type="xs:float"/>\r
- <xs:attribute name="showBootstrap" type="xs:boolean"/>\r
- <xs:attribute name="showDistances" type="xs:boolean"/>\r
- <xs:attribute name="markUnlinked" type="xs:boolean"/>\r
- <xs:attribute name="fitToWindow" type="xs:boolean"/>\r
- <xs:attribute name="currentTree" type="xs:boolean"/>\r
- </xs:complexType>\r
- </xs:element>\r
- \r
- <xs:element name="FeatureSettings" minOccurs="0" maxOccurs="1">\r
- <xs:complexType>\r
- <xs:sequence>\r
- <xs:element name="setting" minOccurs="0" maxOccurs="unbounded">\r
- <xs:complexType>\r
- <xs:attribute name="type" type="xs:string" use="required"/>\r
- <xs:attribute name="colour" type="xs:int" use="required"/>\r
- <xs:attribute name="display" type="xs:boolean" use="required"/>\r
- </xs:complexType>\r
- </xs:element>\r
- </xs:sequence>\r
- </xs:complexType>\r
- </xs:element>\r
- \r
- </xs:sequence>\r
- </xs:sequence>\r
- </xs:complexType>\r
- \r
- <xs:complexType name="feature">\r
- <xs:attribute name="begin" type="xs:int" use="required"/>\r
- <xs:attribute name="end" type="xs:int" use="required"/>\r
- <xs:attribute name="type" type="xs:string" use="required"/>\r
- <xs:attribute name="description" type="xs:string" use="optional"/>\r
- <xs:attribute name="status" type="xs:string" use="optional"/>\r
- </xs:complexType>\r
- \r
- <xs:complexType name="pdbentry">\r
- <xs:sequence minOccurs="0" maxOccurs="unbounded">\r
- <xs:element name="property" minOccurs="0" maxOccurs="unbounded">\r
- <xs:complexType>\r
- <xs:attribute name="name" type="xs:string" use="required"/>\r
- <xs:attribute name="value" type="xs:string" use="required"/>\r
- </xs:complexType>\r
- </xs:element>\r
- </xs:sequence>\r
- <xs:attribute name="id" type="xs:string" use="required"/>\r
- <xs:attribute name="type" type="xs:string" use="optional"/>\r
- </xs:complexType>\r
- \r
-</xs:schema>\r
+<?xml version="1.0" encoding="UTF-8"?>
+<!--
+ * 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.
+-->
+<xs:schema xmlns:xs="http://www.w3.org/2001/XMLSchema"
+ xmlns:vamsas="www.vamsas.org"
+ xmlns:jalview="www.jalview.org/colours"
+ xmlns:jv="www.jalview.org"
+ targetNamespace="www.jalview.org" elementFormDefault="qualified" attributeFormDefault="unqualified">
+
+ <xs:import schemaLocation="vamsasJvV1.xsd" namespace="www.vamsas.org"/>
+ <xs:import schemaLocation="jalviewUserColours.xsd" namespace="www.jalview.org/colours"/>
+ <xs:complexType name="JalviewModel">
+ <xs:sequence>
+ <xs:element name="creationDate" type="xs:dateTime"/>
+ <xs:element name="version" type="xs:string"/>
+ <xs:element name="vamsasModel" type="vamsas:VAMSAS"/>
+ <xs:sequence>
+ <xs:element name="JSeq" maxOccurs="unbounded">
+ <xs:complexType>
+ <xs:sequence>
+ <xs:element name="features" type="jv:feature" minOccurs="0" maxOccurs="unbounded"/>
+ <xs:element name="pdbids" type="jv:pdbentry" minOccurs="0" maxOccurs="unbounded"/>
+ </xs:sequence>
+
+ <xs:attribute name="colour" type="xs:int" use="optional"/>
+ <xs:attribute name="start" type="xs:int" use="required"/>
+ <xs:attribute name="end" type="xs:int" use="required"/>
+ <xs:attribute name="id" type="xs:int" use="required"/>
+ </xs:complexType>
+ </xs:element>
+ <xs:element name="JGroup" minOccurs="0" maxOccurs="unbounded">
+ <xs:complexType>
+ <xs:sequence minOccurs="1">
+ <xs:element name="seq" maxOccurs="unbounded" type="xs:int"/>
+ </xs:sequence>
+ <xs:attribute name="start" type="xs:int"/>
+ <xs:attribute name="end" type="xs:int"/>
+ <xs:attribute name="name" type="xs:string"/>
+ <xs:attribute name="colour" type="xs:string"/>
+ <xs:attribute name="consThreshold" type="xs:int"/>
+ <xs:attribute name="pidThreshold" type="xs:int"/>
+ <xs:attribute name="outlineColour" type="xs:int"/>
+ <xs:attribute name="displayBoxes" type="xs:boolean"/>
+ <xs:attribute name="displayText" type="xs:boolean"/>
+ <xs:attribute name="colourText" type="xs:boolean"/>
+ </xs:complexType>
+ </xs:element>
+ <xs:element name="Viewport" maxOccurs="unbounded">
+ <xs:complexType>
+ <xs:attribute name="conservationSelected" type="xs:boolean"/>
+ <xs:attribute name="pidSelected" type="xs:boolean"/>
+ <xs:attribute name="bgColour" type="xs:string"/>
+ <xs:attribute name="consThreshold" type="xs:int"/>
+ <xs:attribute name="pidThreshold" type="xs:int"/>
+ <xs:attribute name="title" type="xs:string"/>
+ <xs:attribute name="showFullId" type="xs:boolean"/>
+ <xs:attribute name="showText" type="xs:boolean"/>
+ <xs:attribute name="showColourText" type="xs:boolean"/>
+ <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="showAnnotation" type="xs:boolean"/>
+ <xs:attribute name="showConservation" type="xs:boolean"/>
+ <xs:attribute name="showQuality" type="xs:boolean"/>
+ <xs:attribute name="showIdentity" type="xs:boolean"/>
+ <xs:attribute name="xpos" type="xs:int"/>
+ <xs:attribute name="ypos" type="xs:int"/>
+ <xs:attribute name="width" type="xs:int"/>
+ <xs:attribute name="height" type="xs:int"/>
+ <xs:attribute name="startRes" type="xs:int"/>
+ <xs:attribute name="startSeq" type="xs:int"/>
+ <xs:attribute name="fontName" type="xs:string"/>
+ <xs:attribute name="fontSize" type="xs:int"/>
+ <xs:attribute name="fontStyle" type="xs:int"/>
+ </xs:complexType>
+ </xs:element>
+ <xs:element name="UserColours" minOccurs="0" maxOccurs="unbounded">
+ <xs:complexType>
+ <xs:sequence minOccurs="1">
+ <xs:element name="UserColourScheme" type="jalview:JalviewUserColours"/>
+ </xs:sequence>
+ <xs:attribute name="id" type="xs:string"/>
+ </xs:complexType>
+ </xs:element>
+ <xs:element name="tree" minOccurs="0" maxOccurs="unbounded">
+ <xs:complexType>
+ <xs:sequence minOccurs="0" maxOccurs="1">
+ <xs:element name="title" type="xs:string"/>
+ <xs:element name="newick" type="xs:string"/>
+ </xs:sequence>
+ <xs:attribute name="width" type="xs:int"/>
+ <xs:attribute name="height" type="xs:int"/>
+ <xs:attribute name="xpos" type="xs:int"/>
+ <xs:attribute name="ypos" type="xs:int"/>
+ <xs:attribute name="fontName" type="xs:string"/>
+ <xs:attribute name="fontSize" type="xs:int"/>
+ <xs:attribute name="fontStyle" type="xs:int"/>
+ <xs:attribute name="threshold" type="xs:float"/>
+ <xs:attribute name="showBootstrap" type="xs:boolean"/>
+ <xs:attribute name="showDistances" type="xs:boolean"/>
+ <xs:attribute name="markUnlinked" type="xs:boolean"/>
+ <xs:attribute name="fitToWindow" type="xs:boolean"/>
+ <xs:attribute name="currentTree" type="xs:boolean"/>
+ </xs:complexType>
+ </xs:element>
+
+ <xs:element name="FeatureSettings" minOccurs="0" maxOccurs="1">
+ <xs:complexType>
+ <xs:sequence>
+ <xs:element name="setting" minOccurs="0" maxOccurs="unbounded">
+ <xs:complexType>
+ <xs:attribute name="type" type="xs:string" use="required"/>
+ <xs:attribute name="colour" type="xs:int" use="required"/>
+ <xs:attribute name="display" type="xs:boolean" use="required"/>
+ </xs:complexType>
+ </xs:element>
+ </xs:sequence>
+ </xs:complexType>
+ </xs:element>
+
+ </xs:sequence>
+ </xs:sequence>
+ </xs:complexType>
+
+ <xs:complexType name="feature">
+ <xs:attribute name="begin" type="xs:int" use="required"/>
+ <xs:attribute name="end" type="xs:int" use="required"/>
+ <xs:attribute name="type" type="xs:string" use="required"/>
+ <xs:attribute name="description" type="xs:string" use="optional"/>
+ <xs:attribute name="status" type="xs:string" use="optional"/>
+ </xs:complexType>
+
+ <xs:complexType name="pdbentry">
+ <xs:sequence minOccurs="0" maxOccurs="unbounded">
+ <xs:element name="property" minOccurs="0" maxOccurs="unbounded">
+ <xs:complexType>
+ <xs:attribute name="name" type="xs:string" use="required"/>
+ <xs:attribute name="value" type="xs:string" use="required"/>
+ </xs:complexType>
+ </xs:element>
+ </xs:sequence>
+ <xs:attribute name="id" type="xs:string" use="required"/>
+ <xs:attribute name="type" type="xs:string" use="optional"/>
+ </xs:complexType>
+
+</xs:schema>
git://source.jalview.org / jalview.git / blobdiff