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          <clade id_source="ab">
  11             <branch_length>0.2</branch_length>
  12             <confidence type="ml">0.99</confidence>
  13             <confidence type="prob">0.89</confidence>
  14             <sequence id_source="s1">
  15                <name>bax</name>
  16                <mol_seq>acgtddd</mol_seq>
  17             </sequence>
  18             <events>
  19                <type>fusion</type>
  20             </events>
  21             <o:something>foo <value>bar</value>
  22             </o:something>
  23          </clade>
  24          <clade>
  25             <name>223</name>
  26             <branch_length>0.1</branch_length>
  27             <taxonomy>
  28                <code>QWERT</code>
  29             </taxonomy>
  30             <sequence id_source="s2">
  31                <accession source="foo">qw-_|</accession>
  32                <name>bcl2</name>
  33             </sequence>
  34          </clade>
  35       </clade>
  36       <sequence_relation id_ref_0="s1" id_ref_1="s2" type="orthology">
  37          <confidence type="ml">0.99</confidence>
  38       </sequence_relation>
  39       <sequence_relation id_ref_0="s2" id_ref_1="s1" type="orthology"/>
  40       <property datatype="xsd:string" applies_to="clade" id_ref="ab" ref="MORPH:size"> big </property>
  41    </phylogeny>
  42    <d:data>
  43       <d:value>12</d:value>
  44    </d:data>
  45    <o:something type="ru">foobar</o:something>
  46    <o:phylogeny>
  47       <o:clade length="0.1">
  48          <o:tip>tip name</o:tip>
  49       </o:clade>
  50    </o:phylogeny>
  51 </phyloxml>