in progress

[jalview.git] / forester / java / src / org / forester / sdi / SDI.java

diff --git a/forester/java/src/org/forester/sdi/SDI.java b/forester/java/src/org/forester/sdi/SDI.java
index d7bf01b..b1258f0 100644 (file)
--- a/forester/java/src/org/forester/sdi/SDI.java
+++ b/forester/java/src/org/forester/sdi/SDI.java
@@ -32,6 +32,7 @@ import java.util.Map;
 
 import org.forester.phylogeny.Phylogeny;
 import org.forester.phylogeny.PhylogenyNode;
+import org.forester.phylogeny.data.Identifier;
 import org.forester.phylogeny.data.Taxonomy;
 import org.forester.phylogeny.iterators.PhylogenyNodeIterator;
 import org.forester.util.ForesterUtil;
@@ -288,20 +289,43 @@ public abstract class SDI {
     }
 
     static String taxonomyToString( final PhylogenyNode n, final TaxonomyComparisonBase base ) {
-        final Taxonomy tax = n.getNodeData().getTaxonomy();
         switch ( base ) {
             case ID:
-                return tax.getIdentifier().getValue();
+                final Identifier id = n.getNodeData().getTaxonomy().getIdentifier();
+                if ( id == null ) {
+                    return null;
+                }
+                return id.getValuePlusProvider();
             case CODE:
-                return tax.getTaxonomyCode();
+                return n.getNodeData().getTaxonomy().getTaxonomyCode();
             case SCIENTIFIC_NAME:
-                return tax.getScientificName();
+                return n.getNodeData().getTaxonomy().getScientificName();
             default:
                 throw new IllegalArgumentException( "unknown comparison base for taxonomies: " + base );
         }
     }
 
     public enum TaxonomyComparisonBase {
-        ID, CODE, SCIENTIFIC_NAME
+        ID {
+
+            @Override
+            public String toString() {
+                return "taxonomy id";
+            }
+        },
+        CODE {
+
+            @Override
+            public String toString() {
+                return "taxonomy code/mnemonic";
+            }
+        },
+        SCIENTIFIC_NAME {
+
+            @Override
+            public String toString() {
+                return "scientific name";
+            }
+        }
     }
 }