From 117479142a51c5ab468ba4120815cb8436648dfd Mon Sep 17 00:00:00 2001
From: Jim Procter <jprocter@dundee.ac.uk>
Date: Tue, 27 May 2014 16:03:20 +0100
Subject: [PATCH] JAL-1507 added loop to throw dummy javascript calls out to
 the browser to make sure it wakes up and prompts user to
 allow LiveConnect

---
 src/jalview/bin/JalviewLite.java |   35 ++++++++++++++++++++++++++++++++++-
 1 file changed, 34 insertions(+), 1 deletion(-)

diff --git a/src/jalview/bin/JalviewLite.java b/src/jalview/bin/JalviewLite.java
index ad09824..631c7fe 100644
--- a/src/jalview/bin/JalviewLite.java
+++ b/src/jalview/bin/JalviewLite.java
@@ -61,6 +61,7 @@ import java.util.Hashtable;
 import java.util.StringTokenizer;
 import java.util.Vector;
 
+import netscape.javascript.JSException;
 import netscape.javascript.JSObject;
 
 /**
@@ -1479,7 +1480,36 @@ public class JalviewLite extends Applet implements
       callInitCallback();
     }
   }
-
+  private void initLiveConnect()
+  {
+    // try really hard to get the liveConnect thing working
+    boolean notFailed=false;
+    int tries=0;
+    while (notFailed && tries<10) {
+      if (tries>0)
+      {
+        System.err.println("LiveConnect request thread going to sleep.");
+      }
+      try {
+        Thread.sleep(700*(1+tries));
+      }
+      catch (InterruptedException q) {};
+      if (tries++>0)
+      {
+        System.err.println("LiveConnect request thread woken up.");
+      }
+      try {
+        JSObject scriptObject = JSObject.getWindow(this);
+        if (scriptObject.eval("navigator")!=null)
+        {
+          notFailed=true;
+        }
+      } catch (JSException jsex)
+      {
+        System.err.println("Attempt "+tries+" to access LiveConnect javascript failed.");
+      }
+    }
+  }
   private void callInitCallback()
   {
     String initjscallback = getParameter("oninit");
@@ -1498,6 +1528,9 @@ public class JalviewLite extends Applet implements
       {
       }
       ;
+      // try really hard to let the browser plugin know we want liveconnect 
+      initLiveConnect();
+
       if (scriptObject != null)
       {
         try
-- 
1.7.10.2