X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=examples%2Fjavascript%2Fjalview.js;h=407e34a872c16ab67b8bd300e7a0fc31ad803e8b;hb=dc1ad37588e94cbc9ebbfaab2e9e49407f464310;hp=43d03bdc7a9da22f8136b7effbb12e0f669492d6;hpb=1d415c4766233d4710950f6b5384eab64bb629bb;p=jalview.git

diff --git a/examples/javascript/jalview.js b/examples/javascript/jalview.js
index 43d03bd..407e34a 100644
--- a/examples/javascript/jalview.js
+++ b/examples/javascript/jalview.js
@@ -1,6 +1,6 @@
 /**
- * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
- * Copyright (C) $$Year-Rel$$ The Jalview Authors
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.9)
+ * Copyright (C) 2015 The Jalview Authors
  * 
  * This file is part of Jalview.
  * 
@@ -153,8 +153,7 @@ function linkJvJmol(applet, jmolView, modeltofiles) {
 		var sep = applet.getSeparator();
 		var oldjm=jmolView;
 		// recover full id of Jmol applet
-//		jmolView=_jmolGetApplet(jmolView).id; // Jmol 12.4
-		jmolView=jmolFindTarget(jmolView).id; // Jmol 14.2.14
+		jmolView=jmolFindTarget(jmolView)._id; // Jmol 14.2.14
 		var jmbinding=_jvjmols.get(jmolView);
 		if (!jmbinding)
 		{	
@@ -319,10 +318,8 @@ function _jmolhover(jmid, atomlabel, atomidx) {
 	}
 	// use atomlabel[5] to look up model filename so we can highlight associated positions in any jalviews
 	for (ap in _jvapps) {
-		_jvapps[ap].mouseOverStructure(atomlabel[2], atomlabel[3],
-				getDocumentBase()
-						+ "/" + 
-						modeltofiles[atomlabel[5]]);
+		pdb = getDocumentBase() + modeltofiles[atomlabel[5]];
+		_jvapps[ap].mouseOverStructure(atomlabel[2], atomlabel[3], pdb);
 		msg = _jmolhovermsg;
 	}
 }
@@ -356,7 +353,7 @@ function _jmolMessagecallback(jmid, statmess) {
        var jvfollower = document.getElementById("jvfollower");
        //console.log(">>>>>>>> lJvApp" + jvapp);
        linkJvJmol(jvapp);
-    }, 100);
+    }, 200);
     setConsole(document.getElementById("stdout"));
   };
 
@@ -367,7 +364,7 @@ function _jmolMessagecallback(jmid, statmess) {
        var jvfollower = document.getElementById("jvfollower");
        console.log(">>>>>>> lJvFollow" + jvfollower);
        linkJvJmol(jvfollower);
-    }, 100);
+    }, 200);
   };
 
   function lJvA() {