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  1. Jalview
  2. JAL-1220

Jalview InstallAnywhere with VM on XP unable to access JABAWS2

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    Details

    • Type: Bug
    • Status: Closed
    • Priority: Blocker
    • Resolution: Fixed
    • Affects Version/s: 2.8
    • Fix Version/s: 2.8.1
    • Component/s: Dev and Dep, JWS2
    • Labels:
      None
    • Environment:

      Description

      (Reported by Roman Pekhletski at utoronto via jabaws-discuss-owner)

      Symptoms: Jalview is unable to access locally installed JABAWS servers, or the public JABAWS servers.

      Caused by an incompatibility between the java VM shipped with InstallAnywhere and the JABAWS code.

      Exceptions raised (partial dump from jalview console):
      Dec 17, 2012 3:53:16 PM compbio.ws.client.Jws2Client connect
      INFO: Connected successfully!
      Checking service MafftWS
      Testing alignment with default parameters:
      Querying job status...FAILED
      Exception while waiting for results. Exception details are below:
      object is not an instance of declaring class
      java.lang.IllegalArgumentException: object is not an instance of declaring class
          at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
          at sun.reflect.NativeMethodAccessorImpl.invoke(Unknown Source)
          at sun.reflect.DelegatingMethodAccessorImpl.invoke(Unknown Source)
          at java.lang.reflect.Method.invoke(Unknown Source)
          at com.sun.xml.internal.ws.client.EndpointIFInvocationHandler.invoke(Unknown Source)
          at $Proxy17.getJobStatus(Unknown Source)
          at compbio.ws.client.WSTester.testDefaultAlignment(Unknown Source)
          at compbio.ws.client.WSTester.testMsaWS(Unknown Source)
          at compbio.ws.client.WSTester.checkService(Unknown Source)
          at compbio.ws.client.WSTester.checkService(Unknown Source)
          at compbio.ws.client.WSTester.main(Unknown Source)
          at jalview.ws.jws2.Jws2Discoverer.testServiceUrl(Jws2Discoverer.java:684)
          at jalview.gui.WsPreferences.editUrl(WsPreferences.java:486)
          at jalview.gui.WsPreferences.editWsUrl_actionPerformed(WsPreferences.java:275)
          at jalview.jbgui.GWsPreferences$16.mouseClicked(GWsPreferences.java:305)
          at java.awt.AWTEventMulticaster.mouseClicked(Unknown Source)
          at java.awt.Component.processMouseEvent(Unknown Source)
          at javax.swing.JComponent.processMouseEvent(Unknown Source)
          at java.awt.Component.processEvent(Unknown Source)
          at java.awt.Container.processEvent(Unknown Source)
          at java.awt.Component.dispatchEventImpl(Unknown Source)
          at java.awt.Container.dispatchEventImpl(Unknown Source)
          at java.awt.Component.dispatchEvent(Unknown Source)
          at java.awt.LightweightDispatcher.retargetMouseEvent(Unknown Source)
          at java.awt.LightweightDispatcher.processMouseEvent(Unknown Source)
          at java.awt.LightweightDispatcher.dispatchEvent(Unknown Source)
          at java.awt.Container.dispatchEventImpl(Unknown Source)
          at java.awt.Window.dispatchEventImpl(Unknown Source)
          at java.awt.Componentjava.lang.ClassCastException: $Proxy17 cannot be cast to java.io.Closeable
          at compbio.ws.client.WSTester.checkService(Unknown Source)
          at compbio.ws.client.WSTester.main(Unknown Source)
          at jalview.ws.jws2.Jws2Discoverer.testServiceUrl(Jws2Discoverer.java:684)
          at jalview.gui.WsPreferences.editUrl(WsPreferences.java:486)
          at jalview.gui.WsPreferences.editWsUrl_actionPerformed(WsPreferences.java:275)
          at jalview.jbgui.GWsPreferences$16.mouseClicked(GWsPreferences.java:305)
          at java.awt.AWTEventMulticaster.mouseClicked(Unknown Source)
          at java.awt.Component.processMouseEvent(Unknown Source)
          at javax.swing.JComponent.processMouseEvent(Unknown Source)
          at java.awt.Component.processEvent(Unknown Source)
          at java.awt.Container.processEvent(Unknown Source)
          at java.awt.Component.dispatchEventImpl(Unknown Source)
          at java.awt.Container.dispatchEventImpl(Unknown Source)
          at java.awt.Component.dispatchEvent(Unknown Source)
          at java.awt.LightweightDispatcher.retargetMouseEvent(Unknown Source)
          at java..dispatchEvent(Unknown Source)
          at java.awt.EventQueue.dispatchEvent(Unknown Source)
          at java.awt.EventDispatchThread.pumpOneEventForFilters(Unknown Source)
          at java.awt.EventDispatchThread.pumpEventsForFilter(Unknown Source)
          at java.awt.EventDispatchThread.pumpEventsForHierarchy(Unknown Source)
          at java.awt.EventDispatchThread.pumpEvents(Unknown Source)
          at java.awt.EventDispatchThread.pumpEvents(Unknown Source)
          at java.awt.EventDispatchThread.run(Unknown Source)
      awt.LightweightDispatcher.processMouseEvent(Unknown Source)
          at java.awt.LightweightDispatcher.dispatchEvent(Unknown Source)
          at java.awt.Container.dispatchEventImpl(Unknown Source)
          at java.awt.Window.dispatchEventImpl(Unknown Source)
          at java.awt.Component.dispatchEvent(Unknown Source)
          at java.awt.EventQueue.dispatchEvent(Unknown Source)
          at java.awt.EventDispatchThread.pumpOneEventForFilters(Unknown Source)
          at java.awt.EventDispatchThread.pumpEventsForFilter(Unknown Source)
          at java.awt.EventDispatchThread.pumpEventsForHierarchy(Unknown Source)
          at java.awt.EventDispatchThread.pumpEvents(Unknown Source)
          at java.awt.EventDispatchThread.pumpEvents(Unknown Source)
          at java.awt.EventDispatchThread.run(Unknown Source)
      <ServiceName> is not provided checking all known services...

      Dec 17, 2012 3:54:02 PM compbio.ws.client.Jws2Client connect
      INFO: Connected successfully!
      Checking service MafftWS
      Testing alignment with default parameters:
      Querying job status...FAILED
      Exception while waiting for results. Exception details are below:
      object is not an instance of declaring class
      java.lang.IllegalArgumentException: object is not an instance of declaring class
          at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
          at sun.reflect.NativeMethodAccessorImpl.invoke(Unknown Source)
          at sun.reflect.DelegatingMethodAccessorImpl.invoke(Unknown Source)
          at java.lang.reflect.Method.invoke(Unknown Source)
          at com.sun.xml.internal.ws.client.EndpointIFInvocationHandler.invoke(Unknown Source)
          at $Proxy17.getJobStatus(Unknown Source)
          at compbio.ws.client.WSTester.testDefaultAlignment(Unknown Source)
          at compbio.ws.client.WSTester.testMsaWS(Unknown Source)
          at compbio.ws.client.WSTester.checkService(Unknown Source)
          at compbio.ws.client.WSTester.checkService(Unknown Source)
          at compbio.ws.client.WSTester.main(Unknown Source)
          at jalview.ws.jws2.Jws2Discoverer.testServiceUrl(Jws2Discoverer.java:684)
          at jalview.gui.WsPreferences.editUrl(WsPreferences.java:486)
          at jalview.gui.WsPreferences.editWsUrl_actionPerformed(WsPreferences.java:275)
          at jalview.jbgui.GWsPreferences$9.actionPerformed(GWsPreferences.java:224)
          at javax.swing.AbstractButton.fireActionPerformed(Unknown Source)
          at javax.swing.AbstractButton$Handler.actionPerformed(Unknown Source)
          at javax.swing.DefaultButtonModel.fireActionPerformed(Unknown Source)
          at javax.swing.DefaultButtonModel.setPressed(Unknown Source)
          at javax.swing.plaf.basic.BasicButtonListener.mouseReleased(Unknown Source)
          at java.awt.Component.processMouseEvent(Unknown Source)
          at javax.swing.JComponent.processMouseEvent(Unknown Source)
          at java.awt.Component.processEvent(Unknown Source)
          at java.awt.Container.processEvent(Unknown Source)
          at java.awt.Component.dispatchEventImpl(Unknown Source)
          at java.awt.Container.dispatchEventImpl(Unknown Source)
          at java.awt.Component.dispatchEvent(Unknown Source)
          at java.awt.LightweightDispatcher.retargetMouseEvjava.lang.ClassCastException: $Proxy17 cannot be cast to java.io.Closeable
          at compbio.ws.client.WSTester.checkService(Unknown Source)
          at compbio.ws.client.WSTester.main(Unknown Source)
          at jalview.ws.jws2.Jws2Discoverer.testServiceUrl(Jws2Discoverer.java:684)
          at jalview.gui.WsPreferences.editUrl(WsPreferences.java:486)
          at jalview.gui.WsPreferences.editWsUrl_actionPerformed(WsPreferences.java:275)
          at jalview.jbgui.GWsPreferences$9.actionPerformed(GWsPreferences.java:224)
          at javax.swing.AbstractButton.fireActionPerformed(Unknown Source)
          at javax.swing.AbstractButton$Handler.actionPerformed(Unknown Source)
          at javax.swing.DefaultButtonModel.fireActionPerformed(Unknown Source)
          at javax.swing.DefaultButtonModel.setPressed(Unknown Source)
          at javax.swing.plaf.basic.BasicButtonListener.mouseReleased(Unknown Source)
          at java.awt.Component.processMouseEvent(Unknown Source)
          at javax.swing.JComponent.processMouseEvent(Unknown Source)
          at java.awt.Component.processEvent(Unknown Source)
          at java.awent(Unknown Source)
          at java.awt.LightweightDispatcher.processMouseEvent(Unknown Source)
          at java.awt.LightweightDispatcher.dispatchEvent(Unknown Source)
          at java.awt.Container.dispatchEventImpl(Unknown Source)
          at java.awt.Window.dispatchEventImpl(Unknown Source)
          at java.awt.Component.dispatchEvent(Unknown Source)
          at java.awt.EventQueue.dispatchEvent(Unknown Source)
          at java.awt.EventDispatchThread.pumpOneEventForFilters(Unknown Source)
          at java.awt.EventDispatchThread.pumpEventsForFilter(Unknown Source)
          at java.awt.EventDispatchThread.pumpEventsForHierarchy(Unknown Source)
          at java.awt.EventDispatchThread.pumpEvents(Unknown Source)
          at java.awt.EventDispatchThread.pumpEvents(Unknown Source)
          at java.awt.EventDispatchThread.run(Unknown Source)
      t.Container.processEvent(Unknown Source)
          at java.awt.Component.dispatchEventImpl(Unknown Source)
          at java.awt.Container.dispatchEventImpl(Unknown Source)
          at java.awt.Component.dispatchEvent(Unknown Source)
          at java.awt.LightweightDispatcher.retargetMouseEvent(Unknown Source)
          at java.awt.LightweightDispatcher.processMouseEvent(Unknown Source)
          at java.awt.LightweightDispatcher.dispatchEvent(Unknown Source)
          at java.awt.Container.dispatchEventImpl(Unknown Source)
          at java.awt.Window.dispatchEventImpl(Unknown Source)
          at java.awt.Component.dispatchEvent(Unknown Source)
          at java.awt.EventQueue.dispatchEvent(Unknown Source)
          at java.awt.EventDispatchThread.pumpOneEventForFilters(Unknown Source)
          at java.awt.EventDispatchThread.pumpEventsForFilter(Unknown Source)
          at java.awt.EventDispatchThread.pumpEventsForHierarchy(Unknown Source)
          at java.awt.EventDispatchThread.pumpEvents(Unknown Source)
          at java.awt.EventDispatchThread.pumpEvents(Unknown Source)
          at java.awt.EventDispatchThread.run(Unknown Source)

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            Assignee:
            jprocter Jim Procter
            Reporter:
            jprocter Jim Procter
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              Dates

              Created:
              Updated:
              Resolved: