From aad07643da26b84b8f4a058f89610108bcb763e8 Mon Sep 17 00:00:00 2001
From: jpb15 <jpb15@pkb-dev.nescent.org>
Date: Wed, 14 May 2014 18:17:01 -0400
Subject: [PATCH] Periodic commit.

---
 .../Mammals/OLeary_et_al_2013.xml               | 17 +++++++++++------
 1 file changed, 11 insertions(+), 6 deletions(-)

diff --git a/Curation Files/fin_limb-incomplete-files/Mammals/OLeary_et_al_2013.xml b/Curation Files/fin_limb-incomplete-files/Mammals/OLeary_et_al_2013.xml
index e14e953b..305c937a 100644
--- a/Curation Files/fin_limb-incomplete-files/Mammals/OLeary_et_al_2013.xml	
+++ b/Curation Files/fin_limb-incomplete-files/Mammals/OLeary_et_al_2013.xml	
@@ -1,13 +1,13 @@
 <?xml version="1.0" encoding="UTF-8"?>
-<nex:nexml xmlns:nex="http://www.nexml.org/2009" xmlns="http://www.nexml.org/2009" xmlns:bean="http://mesquiteproject.org/bean#" xmlns:msq="http://mesquiteproject.org#" xmlns:nr="http://mesquiteproject.org/namereference#" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:xsd="http://www.w3.org/2001/XMLSchema#" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xmlns:phen="http://www.bioontologies.org/obd/schema/pheno" generator="Phenex null" version="0.9">
+<nex:nexml xmlns:nex="http://www.nexml.org/2009" xmlns="http://www.nexml.org/2009" xmlns:bean="http://mesquiteproject.org/bean#" xmlns:msq="http://mesquiteproject.org#" xmlns:nr="http://mesquiteproject.org/namereference#" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:xsd="http://www.w3.org/2001/XMLSchema#" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xmlns:phen="http://www.bioontologies.org/obd/schema/pheno" generator="Phenex null" version="0.9" xsi:schemaLocation="http://www.nexml.org/2009 http://www.nexml.org/2009/nexml.xsd http://www.bioontologies.org/obd/schema/pheno http://purl.org/phenoscape/phenoxml.xsd">
   <meta xmlns:ter="http://purl.org/dc/terms/" xsi:type="nex:LiteralMeta" property="ter:references"/>
-  <meta xmlns:ter="http://purl.org/dc/terms/" xsi:type="nex:LiteralMeta" property="ter:description"/>
   <meta xmlns:ter="http://purl.org/dc/terms/" xsi:type="nex:LiteralMeta" property="ter:creator"/>
   <meta xmlns:ter="http://purl.org/dc/terms/" xsi:type="nex:ResourceMeta" rel="ter:source">
     <meta xsi:type="nex:LiteralMeta" property="ter:bibliographicCitation">O’Leary, M. a, Bloch, J. I., Flynn, J. J., Gaudin, T. J., Giallombardo, A., Giannini, N. P., … Cirranello, A. L. (2013). The placental mammal ancestor and the post-K-Pg radiation of placentals. Science, 339(6120), 662–7.</meta>
     <meta xsi:type="nex:LiteralMeta" property="ter:identifier">10.1126/science.1229237</meta>
     <meta xsi:type="nex:LiteralMeta" property="ter:title">O’Leary, M. a, Bloch, J. I., Flynn, J. J., Gaudin, T. J., Giallombardo, A., Giannini, N. P., … Cirranello, A. L. (2013)</meta>
   </meta>
+  <meta xmlns:ter="http://purl.org/dc/terms/" xsi:type="nex:LiteralMeta" property="ter:description"/>
   <otus about="#otus1" id="otus1" label="Taxa">
     <meta content="8883312808945517951" datatype="xsd:long" id="meta354" property="bean:AssignedIDNumber" xsi:type="nex:LiteralMeta"/>
     <meta content="Default Bush (id 1, version 348)" datatype="xsd:anySimpleType" id="meta353" property="bean:DefaultTree" xsi:type="nex:LiteralMeta"/>
@@ -16533,7 +16533,7 @@
             <phen:phenotype>
               <phen:phenotype_character>
                 <phen:bearer>
-                  <phen:typeref about="UBERON:0005880"/>
+                  <phen:typeref about="UBERON:0012135"/>
                 </phen:bearer>
                 <phen:quality>
                   <phen:typeref about="PATO:0000462"/>
@@ -16547,7 +16547,7 @@
             <phen:phenotype>
               <phen:phenotype_character>
                 <phen:bearer>
-                  <phen:typeref about="UBERON:0005880"/>
+                  <phen:typeref about="UBERON:0012135"/>
                 </phen:bearer>
                 <phen:quality>
                   <phen:typeref about="PATO:0000467"/>
@@ -17550,10 +17550,13 @@
             <phen:phenotype>
               <phen:phenotype_character>
                 <phen:bearer>
-                  <phen:typeref about="UBERON:4200187"/>
+                  <phen:typeref about="UBERON:0002398"/>
                 </phen:bearer>
                 <phen:quality>
-                  <phen:typeref about="PATO:0000462"/>
+                  <phen:typeref about="PATO:0002002"/>
+                  <phen:related_entity>
+                    <phen:typeref about="UBERON:0003221"/>
+                  </phen:related_entity>
                 </phen:quality>
               </phen:phenotype_character>
             </phen:phenotype>
@@ -231670,6 +231673,8 @@
       </row>
     </matrix>
   </characters>
+  <trees id="td9e5ceba-323d-4801-9ee0-fd81a9cd8e94" otus="otus1"/>
+  <trees id="t0e9361c3-93e3-4d7e-9268-4d13b838fec8" otus="otus1"/>
   <trees id="t8ce17b26-d64f-4db6-8476-c899140c117a" otus="otus1"/>
   <trees id="te820de4d-63ca-4f61-9744-a9d484a9d092" otus="otus1"/>
   <trees id="t46209f64-3770-45e4-a77a-ed8bd580cbad" otus="otus1"/>