schemas/jalview.xsd

   1 <?xml version="1.0" encoding="UTF-8"?>\r
   2 <xs:schema xmlns:xs="http://www.w3.org/2001/XMLSchema" \r
   3                         xmlns:vamsas="www.vamsas.org" \r
   4                         xmlns:jalview="www.jalview.org/colours" \r
   5                         targetNamespace="www.jalview.org" \r
   6                         elementFormDefault="qualified" \r
   7                         attributeFormDefault="unqualified">\r
   8 \r
   9 <xs:import schemaLocation="vamsas.xsd" namespace="www.vamsas.org" />\r
  10 <xs:import schemaLocation="jalviewUserColours.xsd" namespace="www.jalview.org/colours"/>\r
  11 \r
  12 <xs:complexType name="JalviewModel">\r
  13 \r
  14     <xs:sequence>\r
  15 \r
  16             <xs:element name="creationDate" type="xs:dateTime"/>\r
  17             \r
  18             <xs:element name="version" type="xs:string"/>\r
  19 \r
  20         <xs:element name="vamsasModel" type="vamsas:VAMSAS"/>\r
  21 \r
  22         <xs:sequence>\r
  23 \r
  24             <xs:element name="JSeq" maxOccurs="unbounded">\r
  25 \r
  26                 <xs:complexType>\r
  27                     \r
  28                                         <xs:attribute name="colour" type="xs:int" use="optional"/>\r
  29                                         \r
  30                     <xs:attribute name="start" type="xs:int" use="required"/>\r
  31 \r
  32                     <xs:attribute name="end" type="xs:int" use="required"/>\r
  33 \r
  34                     <xs:attribute name="id" type="xs:int" use="required"/>\r
  35 \r
  36                 </xs:complexType>\r
  37 \r
  38             </xs:element>\r
  39 \r
  40             <xs:element name="JGroup" minOccurs="0" maxOccurs="unbounded">\r
  41 \r
  42                 <xs:complexType>\r
  43 \r
  44                     <xs:sequence minOccurs="1">\r
  45 \r
  46                         <xs:element name="seq" maxOccurs="unbounded" type="xs:int"/>\r
  47                                         \r
  48                     </xs:sequence>\r
  49 \r
  50                         <xs:attribute name="start" type="xs:int"/>\r
  51 \r
  52                         <xs:attribute name="end" type="xs:int"/>\r
  53 \r
  54                         <xs:attribute name="name" type="xs:string"/>\r
  55 \r
  56                         <xs:attribute name="colour" type="xs:string"/>\r
  57 \r
  58                                                 <xs:attribute name="consThreshold" type="xs:int"/>\r
  59 \r
  60                                                 <xs:attribute name="pidThreshold" type="xs:int"/>\r
  61 \r
  62                         <xs:attribute name="outlineColour" type="xs:int"/>\r
  63 \r
  64                         <xs:attribute name="displayBoxes" type="xs:boolean"/>\r
  65 \r
  66                         <xs:attribute name="displayText" type="xs:boolean"/>\r
  67 \r
  68                         <xs:attribute name="colourText" type="xs:boolean"/>\r
  69 \r
  70                 </xs:complexType>\r
  71 \r
  72             </xs:element>\r
  73 \r
  74             <xs:element name="Viewport" maxOccurs="unbounded">\r
  75 \r
  76                 <xs:complexType>\r
  77                                         <xs:attribute name="conservationSelected" type="xs:boolean"/>\r
  78 \r
  79                                                 <xs:attribute name="pidSelected" type="xs:boolean"/>\r
  80 \r
  81                         <xs:attribute name="bgColour" type="xs:string"/>\r
  82 \r
  83                                                 <xs:attribute name="consThreshold" type="xs:int"/>\r
  84 \r
  85                                                 <xs:attribute name="pidThreshold" type="xs:int"/>\r
  86 \r
  87                         <xs:attribute name="title" type="xs:string"/>\r
  88 \r
  89                         <xs:attribute name="showFullId" type="xs:boolean"/>\r
  90 \r
  91                         <xs:attribute name="showText" type="xs:boolean"/>\r
  92 \r
  93                         <xs:attribute name="showColourText" type="xs:boolean"/>\r
  94 \r
  95                         <xs:attribute name="showBoxes" type="xs:boolean"/>\r
  96 \r
  97                         <xs:attribute name="wrapAlignment" type="xs:boolean"/>\r
  98 \r
  99                         <xs:attribute name="renderGaps" type="xs:boolean"/>\r
 100 \r
 101                         <xs:attribute name="showSequenceFeatures" type="xs:boolean"/>\r
 102 \r
 103                                                 <xs:attribute name="showAnnotation" type="xs:boolean"/>\r
 104 \r
 105                         <xs:attribute name="showConservation" type="xs:boolean"/>\r
 106 \r
 107                         <xs:attribute name="showQuality" type="xs:boolean"/>\r
 108 \r
 109                                                 <xs:attribute name="showIdentity" type="xs:boolean"/>\r
 110 \r
 111                     <xs:attribute name="xpos" type="xs:int"/>\r
 112 \r
 113                     <xs:attribute name="ypos" type="xs:int"/>\r
 114 \r
 115                     <xs:attribute name="width" type="xs:int"/>\r
 116 \r
 117                     <xs:attribute name="height" type="xs:int"/>\r
 118 \r
 119                                     <xs:attribute name="startRes" type="xs:int"/>\r
 120                                         <xs:attribute name="startSeq" type="xs:int"/>\r
 121                                         <xs:attribute name="fontName" type="xs:string"/>\r
 122                                         <xs:attribute name="fontSize" type="xs:int"/>\r
 123                                         <xs:attribute name="fontStyle" type="xs:int"/>\r
 124                                 \r
 125 \r
 126                 </xs:complexType>\r
 127 \r
 128             </xs:element>        \r
 129             \r
 130 \r
 131                         <xs:element name="UserColours" minOccurs="0" maxOccurs="unbounded">\r
 132                 <xs:complexType>  \r
 133                                          <xs:sequence minOccurs="1">\r
 134                                                 <xs:element name="UserColourScheme" type="jalview:JalviewUserColours"/>\r
 135                                          </xs:sequence>\r
 136                                          <xs:attribute name="id" type="xs:string"/>\r
 137                  </xs:complexType>\r
 138             </xs:element>\r
 139             \r
 140                                 <xs:element name="tree" minOccurs="0" maxOccurs="unbounded">\r
 141                 <xs:complexType>  \r
 142                                          <xs:sequence minOccurs="0" maxOccurs="1">\r
 143                                             <xs:element name="title" type="xs:string"/>\r
 144                                                 <xs:element name="newick" type="xs:string"/>\r
 145                                          </xs:sequence>\r
 146                                          <xs:attribute name="width" type="xs:int"/>\r
 147                                           <xs:attribute name="height" type="xs:int"/>\r
 148                                            <xs:attribute name="xpos" type="xs:int"/>\r
 149                                             <xs:attribute name="ypos" type="xs:int"/>\r
 150                                         <xs:attribute name="fontName" type="xs:string"/>\r
 151                                         <xs:attribute name="fontSize" type="xs:int"/>\r
 152                                         <xs:attribute name="fontStyle" type="xs:int"/>\r
 153                                           <xs:attribute name="threshold" type="xs:float"/>\r
 154                                          <xs:attribute name="showBootstrap" type="xs:boolean"/>\r
 155                                          <xs:attribute name="showDistances" type="xs:boolean"/>\r
 156                                          <xs:attribute name="markUnlinked" type="xs:boolean"/>\r
 157                                          <xs:attribute name="fitToWindow" type="xs:boolean"/>\r
 158                                          <xs:attribute name="currentTree" type="xs:boolean"/>\r
 159                  </xs:complexType>\r
 160             </xs:element>     \r
 161 \r
 162         </xs:sequence>\r
 163 \r
 164     </xs:sequence>\r
 165 \r
 166 </xs:complexType>\r
 167 \r
 168 \r
 169 \r
 170 \r
 171 </xs:schema>\r