[Treebase-guts] SF.net SVN: treebase:[64] trunk/treebase-core/src/main/java/org/cipres/ treebase/domain/nexus/nexml/NexmlOTUConverter.java

[<rv...@us...>]

Revision: 64
          http://treebase.svn.sourceforge.net/treebase/?rev=64&view=rev
Author:   rvos
Date:     2009-06-19 02:15:10 +0000 (Fri, 19 Jun 2009)

Log Message:
-----------
Added NCBI taxonID and uBio namebankID serialization (to metadata attachments)

Modified Paths:
--------------
    trunk/treebase-core/src/main/java/org/cipres/treebase/domain/nexus/nexml/NexmlOTUConverter.java

Modified: trunk/treebase-core/src/main/java/org/cipres/treebase/domain/nexus/nexml/NexmlOTUConverter.java
===================================================================
--- trunk/treebase-core/src/main/java/org/cipres/treebase/domain/nexus/nexml/NexmlOTUConverter.java	2009-06-19 02:14:12 UTC (rev 63)
+++ trunk/treebase-core/src/main/java/org/cipres/treebase/domain/nexus/nexml/NexmlOTUConverter.java	2009-06-19 02:15:10 UTC (rev 64)
@@ -4,6 +4,7 @@
 import org.cipres.treebase.domain.taxon.TaxonLabel;
 import org.cipres.treebase.domain.taxon.TaxonLabelHome;
 import org.cipres.treebase.domain.taxon.TaxonLabelSet;
+import org.cipres.treebase.domain.taxon.TaxonVariant;
 import org.nexml.model.Document;
 import org.nexml.model.OTU;
 import org.nexml.model.OTUs;
@@ -74,6 +75,15 @@
 		OTU xmlOTU = xmlOTUs.createOTU();
 		xmlOTU.setLabel(taxonLabel.getTaxonLabel());
 		attachTreeBaseID(xmlOTU,taxonLabel);
+		if ( null != taxonLabel.getNcbiTaxID() ) {
+			attachAnnotation("dc:identifier", "NCBI:" + taxonLabel.getNcbiTaxID(), mDCURI, xmlOTU);
+		}
+		TaxonVariant tv = taxonLabel.getTaxonVariant();
+		if ( null != tv ) {
+			if ( null != tv.getNamebankID() ) {
+				attachAnnotation("dc:identifier", "uBio:" + tv.getNamebankID(), mDCURI, xmlOTU);
+			}
+		}
 		return xmlOTU;
 	}
 


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