forester/test_data/phyloxml_test_t3.xml

   1 <?xml version="1.0" encoding="UTF-8"?>
   2 <phyloxml xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"
   3    xsi:schemaLocation="http://www.phyloxml.org http://www.phyloxml.org/1.10/phyloxml.xsd"
   4    xmlns="http://www.phyloxml.org" xmlns:d="http://www.different.org" xmlns:o="http://www.other.org">
   5    <o:something>foo <value>bar</value>
   6    </o:something>
   7    <phylogeny rooted="true">
   8       <date>2008-12-12T12:12:12</date>
   9       <clade>
  10          <node_id>a</node_id>
  11          <clade id_source="ab">
  12             <branch_length>0.2</branch_length>
  13             <confidence type="ml">0.99</confidence>
  14             <confidence type="prob">0.89</confidence>
  15             <node_id>c</node_id>
  16             <sequence id_source="s1">
  17                <name>bax</name>
  18                <mol_seq>acgtddd</mol_seq>
  19             </sequence>
  20             <events>
  21                <type>fusion</type>
  22             </events>
  23             <o:something>foo <value>bar</value>
  24             </o:something>
  25          </clade>
  26          <clade>
  27             <name>223</name>
  28             <branch_length>0.1</branch_length>
  29             <node_id>b</node_id>
  30             <taxonomy>
  31                <code>QWERT</code>
  32             </taxonomy>
  33             <sequence id_source="s2">
  34                <accession source="foo">qw-_|</accession>
  35                <name>bcl2</name>
  36             </sequence>
  37          </clade>
  38       </clade>
  39       <sequence_relation id_ref_0="s1" id_ref_1="s2" type="orthology">
  40          <confidence type="ml">0.99</confidence>
  41       </sequence_relation>
  42       <sequence_relation id_ref_0="s2" id_ref_1="s1" type="orthology"/>
  43       <property datatype="xsd:string" applies_to="clade" id_ref="ab" ref="MORPH:size"> big </property>
  44    </phylogeny>
  45    <d:data>
  46       <d:value>12</d:value>
  47    </d:data>
  48    <o:something type="ru">foobar</o:something>
  49    <o:phylogeny>
  50       <o:clade length="0.1">
  51          <o:tip>tip name</o:tip>
  52       </o:clade>
  53    </o:phylogeny>
  54 </phyloxml>