X-Git-Url: http://source.jalview.org/gitweb/?p=vamsas.git;a=blobdiff_plain;f=src%2Fuk%2Fac%2Fvamsas%2Fclient%2FVorbaXmlBinder.java;fp=src%2Fuk%2Fac%2Fvamsas%2Fclient%2FVorbaXmlBinder.java;h=016700a30a41124a3d78254c9fffd95d08f370c8;hp=b237dcfa0fb7541bec5d8209d6362cab8ea9c7fd;hb=29860590af094c4a91ada75ff4d79a45979d9f50;hpb=04f97470ac2d7d16470414f2b43b57277dd64755

diff --git a/src/uk/ac/vamsas/client/VorbaXmlBinder.java b/src/uk/ac/vamsas/client/VorbaXmlBinder.java
index b237dcf..016700a 100644
--- a/src/uk/ac/vamsas/client/VorbaXmlBinder.java
+++ b/src/uk/ac/vamsas/client/VorbaXmlBinder.java
@@ -262,13 +262,16 @@ public class VorbaXmlBinder implements UnmarshalListener {
   public static Object[] getVamsasObjects(Reader instream,
       VorbaIdFactory factory, Vobject root) {
     Unmarshaller unmarshaller = new Unmarshaller(root);
+    final VorbaIdFactory ourfactory = factory;
     unmarshaller.setIDResolver(new IDResolver() {
       public Object resolve(String id) {
-        // TODO: allow for external ID resolution
-        VorbaXmlBinder.log
-            .warn("Warning - id "
-                + id
-                + " is not found in the Vamsas XML! (TODO: Ignore if this is a forward reference!)");
+        if (ourfactory.warnUnresolved) {
+          // TODO: allow for external ID resolution
+          VorbaXmlBinder.log
+          .warn("Warning - id "
+              + id
+              + " is not found in the Vamsas XML! (TODO: Ignore if this is a forward reference!)");
+        }
         return null;
       }
     });
@@ -287,7 +290,9 @@ public class VorbaXmlBinder implements UnmarshalListener {
         // TODO: mark objects in oobjhash prior to unmarshalling, to detect when
         // objects have been lost through an update.
         // tohere
+        factory.warnUnresolved = false;
         Object obj = unmarshaller.unmarshal(instream);
+        factory.warnUnresolved = true;
         boolean sync = ensure_references(unrefedObj, objrefs);
         if (!(obj instanceof Vobject))
           return null;