resources/uniprot_mapping.xml

   1 <?xml version="1.0"?>\r
   2 <mapping>\r
   3         <class name="jalview.datamodel.UniprotFile">\r
   4                  <map-to xml="uniprot"/>               \r
   5                  <field name="UniprotEntries" type="jalview.datamodel.UniprotEntry" collection="vector">\r
   6                       <bind-xml name="entry"/>\r
   7                  </field>               \r
   8         </class>\r
   9                  \r
  10          <class name="jalview.datamodel.UniprotEntry">\r
  11                 <field name="name" type="string" collection="vector"/>\r
  12                 <field name="accession" type="string" collection="vector"/>\r
  13                 <field name="protein" type="jalview.datamodel.UniprotProteinName">\r
  14                         <bind-xml name="protein"/>\r
  15                 </field>\r
  16               \r
  17               <field name="UniprotSequence" type="jalview.datamodel.UniprotSequence">\r
  18                 <bind-xml name="sequence"/> \r
  19                </field>\r
  20                <field name="feature" type="jalview.datamodel.SequenceFeature" collection="vector"/>\r
  21                <field name="dbReference" type="jalview.datamodel.PDBEntry" collection="vector"/>\r
  22                        \r
  23          </class>\r
  24          \r
  25          <class name="jalview.datamodel.UniprotProteinName">\r
  26                 <field name="name" type="string" collection="vector">\r
  27                         <bind-xml name="name"/>\r
  28                 </field>                \r
  29          </class>\r
  30          \r
  31          \r
  32          <class name="jalview.datamodel.SequenceFeature">\r
  33                 <field name="type">\r
  34                         <bind-xml node="attribute"/>\r
  35                 </field>\r
  36                 <field name="description">\r
  37                          <bind-xml node="attribute"/>\r
  38                 </field>\r
  39                 <field name="status">\r
  40                         <bind-xml node="attribute"/>\r
  41                 </field>\r
  42                 <field name="position">\r
  43                  <bind-xml name="position" node="attribute" location="location/position"/>\r
  44                  </field>\r
  45                 <field name="begin">\r
  46                  <bind-xml name="position" node="attribute" location="location/begin"/>\r
  47                  </field>\r
  48                 <field name="end">\r
  49                  <bind-xml name="position" node="attribute" location="location/end"/>\r
  50                  </field>\r
  51          </class>\r
  52         \r
  53           <class name="jalview.datamodel.UniprotSequence">\r
  54                      <field name="content" type="string">\r
  55                         <bind-xml name="sequence" node="text"/>\r
  56                      </field>\r
  57          </class>\r
  58          \r
  59          <class name="jalview.datamodel.PDBEntry">\r
  60                 <field name="type"><bind-xml node="attribute"/></field>\r
  61                 <field name="id"><bind-xml node="attribute"/></field>\r
  62                 <field name="property" collection="hashtable">\r
  63                         <bind-xml name="property">\r
  64                            <class name="org.exolab.castor.mapping.MapItem">\r
  65                               <field name="key">\r
  66                                 <bind-xml name="type" node="attribute"/>\r
  67                               </field>\r
  68                               <field name="value">\r
  69                                 <bind-xml node="attribute"/>\r
  70                                 </field>\r
  71                            </class>\r
  72                         </bind-xml>\r
  73                 </field>\r
  74          </class>\r
  75 \r
  76 </mapping>\r