Hello Jim,
my attempts at connecting to JABAWS from Jalview have failed.
It is a new install (never worked before) on a new computer where everything looked fine so far... but it must be a problem on my part since
http://www.compbio.dundee.ac.uk/jabaws/ServiceStatus reports that everything's running OK.
The error message in JalView is always the same, basically saying:
Web Service Configuration Problem: URLs not contacted: http://www.compbio.dundee.ac.uk/jabaws
go to Tools>Preferences in order to edit >Connections (but I don't use any proxy) or >Web services.
In the WebServices tab, I can't get
http://www.compbio.dundee.ac.uk/jabaws or
http://www.compbio.dundee.ac.uk:80/jabaws (as it appeared in the ServiceStatus report)
to be validated.
Please, find the log of the Java console as I failed editing the web service below (simply pressing OK after selecting jabaws for editing - no change).
I thank you in advance for giving it some of your time.
With my best regards,
Antoine
Jalview Desktop 2.8
Build Date: 12 November 2012
Java version: 1.6.0_01
x86 Windows Vista 6.1
<ServiceName> is not provided checking all known services...
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.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.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.run(Unknown Source)
java.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.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.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.run(Unknown Source)