X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fws%2Fjws2%2FMsaWSThread.java;h=e5c3752d7537d9195aad3b8b38c1ac4b62481dcb;hb=55a3fa00d81fe3156c55d4748eabfadeb25a97ed;hp=a54d0b548dffc39c5bbaea61073a23dfbb849319;hpb=865a855a4ca87eadb3e5ff284ed32ed307d9c34b;p=jalview.git

diff --git a/src/jalview/ws/jws2/MsaWSThread.java b/src/jalview/ws/jws2/MsaWSThread.java
index a54d0b5..e5c3752 100644
--- a/src/jalview/ws/jws2/MsaWSThread.java
+++ b/src/jalview/ws/jws2/MsaWSThread.java
@@ -1,5 +1,5 @@
 /*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1)
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.1)
  * Copyright (C) 2014 The Jalview Authors
  * 
  * This file is part of Jalview.
@@ -545,6 +545,11 @@ class MsaWSThread extends AWS2Thread implements WSClientI
           }
           wsInfo.setProgressText(jobs[job].getJobnum(), OutputHeader
                   + cancelledMessage + "\n");
+        } else {
+          // if we hadn't submitted then just mark the job as cancelled.
+          jobs[job].setSubjobComplete(true);
+          wsInfo.setStatus(jobs[job].getJobnum(), WebserviceInfo.STATE_CANCELLED_OK);
+          
         }
       }
       if (cancelled)