From: cmzmasek@gmail.com <cmzmasek@gmail.com@ca865154-3058-d1c3-3e42-d8f55a55bdbd>
Date: Tue, 22 Oct 2013 00:08:29 +0000 (+0000)
Subject: more species added
X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=7e5ebac8db526ded784ccf1d9297c6d1ac4e8124;p=jalview.git

more species added
---

diff --git a/forester/data/tol_151.xml b/forester/data/tol_152.xml
similarity index 97%
rename from forester/data/tol_151.xml
rename to forester/data/tol_152.xml
index ecd1a55..aa9a84f 100644
--- a/forester/data/tol_151.xml
+++ b/forester/data/tol_152.xml
@@ -2193,28 +2193,44 @@
                               </taxonomy>
                               <clade>
                                 <taxonomy>
-                                  <id provider="uniprot">6178</id>
-                                  <scientific_name>Trematoda</scientific_name>
-                                  <rank>class</rank>
+                                  <scientific_name>Neodermata</scientific_name>
                                 </taxonomy>
                                 <clade>
                                   <taxonomy>
-                                    <id provider="uniprot">6183</id>
-                                    <code>SCHMA</code>
-                                    <scientific_name>Schistosoma mansoni</scientific_name>
-                                    <common_name>Blood fluke</common_name>
-                                    <rank>species</rank>
-                                    <uri>http://animaldiversity.ummz.umich.edu/site/resources/Grzimek_inverts/Trematoda/Schistosoma_mansoni.jpg/medium.jpg</uri>
+                                    <id provider="uniprot">6179</id>
+                                    <scientific_name>Digenea</scientific_name>
+                                    <common_name>flukes</common_name>
+                                    <rank>subclass</rank>
                                   </taxonomy>
+                                  <clade>
+                                    <taxonomy>
+                                      <id provider="uniprot">6183</id>
+                                      <code>SCHMA</code>
+                                      <scientific_name>Schistosoma mansoni</scientific_name>
+                                      <common_name>Blood fluke</common_name>
+                                      <rank>species</rank>
+                                      <uri>http://animaldiversity.ummz.umich.edu/site/resources/Grzimek_inverts/Trematoda/Schistosoma_mansoni.jpg/medium.jpg</uri>
+                                    </taxonomy>
+                                  </clade>
+                                  <clade>
+                                    <taxonomy>
+                                      <id provider="uniprot">79923</id>
+                                      <code>CLOSI</code>
+                                      <scientific_name>Clonorchis sinensi</scientific_name>
+                                      <authority>Cobbold, 1875</authority>
+                                      <common_name>Chinese liver fluke</common_name>
+                                      <rank>species</rank>
+                                      <uri>http://people.bethel.edu/~kisrob/VirtualBiology/Planaria/Chlonorchis_sinensis.jpg</uri>
+                                    </taxonomy>
+                                  </clade>
                                 </clade>
                                 <clade>
                                   <taxonomy>
-                                    <id provider="uniprot">79923</id>
-                                    <code>CLOSI</code>
-                                    <scientific_name>Clonorchis sinensi</scientific_name>
-                                    <authority>Cobbold, 1875</authority>
-                                    <common_name>Chinese liver fluke</common_name>
-                                    <uri>http://people.bethel.edu/~kisrob/VirtualBiology/Planaria/Chlonorchis_sinensis.jpg</uri>
+                                    <id provider="uniprot">6211</id>
+                                    <code>ECHMU</code>
+                                    <scientific_name>Echinococcus multilocularis</scientific_name>
+                                    <rank>species</rank>
+                                    <uri>http://www.stanford.edu/group/parasites/ParaSites2003/Echinococcus/images/Echino_generalinfo.jpg</uri>
                                   </taxonomy>
                                 </clade>
                               </clade>
@@ -5302,64 +5318,82 @@
               <name>Kinetoplastida &amp; Heterolobosea</name>
               <clade>
                 <taxonomy>
-                  <id provider="uniprot">5654</id>
-                  <scientific_name>Trypanosomatidae</scientific_name>
-                  <rank>family</rank>
+                  <id provider="uniprot">5653</id>
+                  <scientific_name>Kinetoplastida</scientific_name>
+                  <common_name>kinetoplasts</common_name>
+                  <rank>order</rank>
                 </taxonomy>
                 <clade>
                   <taxonomy>
-                    <id provider="uniprot">5690</id>
-                    <scientific_name>Trypanosoma</scientific_name>
-                    <rank>genus</rank>
+                    <id provider="uniprot">5654</id>
+                    <scientific_name>Trypanosomatidae</scientific_name>
+                    <rank>family</rank>
                   </taxonomy>
                   <clade>
                     <taxonomy>
-                      <id provider="uniprot">999953</id>
-                      <code>TRYB2</code>
-                      <scientific_name>Trypanosoma brucei brucei (strain 927/4 GUTat10.1)</scientific_name>
-                      <rank>strain</rank>
+                      <id provider="uniprot">5690</id>
+                      <scientific_name>Trypanosoma</scientific_name>
+                      <rank>genus</rank>
                     </taxonomy>
+                    <clade>
+                      <taxonomy>
+                        <id provider="uniprot">999953</id>
+                        <code>TRYB2</code>
+                        <scientific_name>Trypanosoma brucei brucei (strain 927/4 GUTat10.1)</scientific_name>
+                        <rank>strain</rank>
+                      </taxonomy>
+                    </clade>
+                    <clade>
+                      <taxonomy>
+                        <id provider="uniprot">5693</id>
+                        <code>TRYCR</code>
+                        <scientific_name>Trypanosoma cruzi</scientific_name>
+                        <rank>species</rank>
+                        <uri>http://upload.wikimedia.org/wikipedia/commons/thumb/0/0b/Trypanosoma_cruzi_crithidia.jpeg/220px-Trypanosoma_cruzi_crithidia.jpeg</uri>
+                      </taxonomy>
+                    </clade>
                   </clade>
                   <clade>
                     <taxonomy>
-                      <id provider="uniprot">5693</id>
-                      <code>TRYCR</code>
-                      <scientific_name>Trypanosoma cruzi</scientific_name>
-                      <rank>species</rank>
-                      <uri>http://upload.wikimedia.org/wikipedia/commons/thumb/0/0b/Trypanosoma_cruzi_crithidia.jpeg/220px-Trypanosoma_cruzi_crithidia.jpeg</uri>
+                      <id provider="uniprot">5658</id>
+                      <scientific_name>Leishmania</scientific_name>
+                      <rank>genus</rank>
                     </taxonomy>
+                    <clade>
+                      <taxonomy>
+                        <id provider="uniprot">5664</id>
+                        <code>LEIMA</code>
+                        <scientific_name>Leishmania major</scientific_name>
+                        <rank>species</rank>
+                      </taxonomy>
+                    </clade>
+                    <clade>
+                      <taxonomy>
+                        <id provider="uniprot">5671</id>
+                        <code>LEIIN</code>
+                        <scientific_name>Leishmania infantum</scientific_name>
+                        <rank>species</rank>
+                      </taxonomy>
+                    </clade>
+                    <clade>
+                      <taxonomy>
+                        <id provider="uniprot">5660</id>
+                        <code>LEIBR</code>
+                        <scientific_name>Leishmania braziliensis</scientific_name>
+                        <rank>species</rank>
+                      </taxonomy>
+                    </clade>
                   </clade>
                 </clade>
                 <clade>
                   <taxonomy>
-                    <id provider="uniprot">5658</id>
-                    <scientific_name>Leishmania</scientific_name>
-                    <rank>genus</rank>
+                    <id provider="uniprot">75058</id>
+                    <code>BODSA</code>
+                    <scientific_name>Bodo saltans</scientific_name>
+                    <common_name>Flagellated protozoan</common_name>
+                    <rank>species</rank>
+                    <uri>http://protist.i.hosei.ac.jp/pdb/images/Mastigophora/Bodo/sp_1f.jpg</uri>
                   </taxonomy>
-                  <clade>
-                    <taxonomy>
-                      <id provider="uniprot">5664</id>
-                      <code>LEIMA</code>
-                      <scientific_name>Leishmania major</scientific_name>
-                      <rank>species</rank>
-                    </taxonomy>
-                  </clade>
-                  <clade>
-                    <taxonomy>
-                      <id provider="uniprot">5671</id>
-                      <code>LEIIN</code>
-                      <scientific_name>Leishmania infantum</scientific_name>
-                      <rank>species</rank>
-                    </taxonomy>
-                  </clade>
-                  <clade>
-                    <taxonomy>
-                      <id provider="uniprot">5660</id>
-                      <code>LEIBR</code>
-                      <scientific_name>Leishmania braziliensis</scientific_name>
-                      <rank>species</rank>
-                    </taxonomy>
-                  </clade>
                 </clade>
               </clade>
               <clade>