Re: [Genoviz-devel] IGB 5.4 beta

[Ido M. T. <ta...@im...>]

On Monday 16 March 2009 21:29:07 John Nicol wrote:
> Hi all,
>
> I'd like to announce IGB 5.4 Beta (currently revision 3654) at
> http://igb.bioviz.org.   Please test this if you get a chance, and please
> let me know about any bugs you find!

Great that you invest time into this project!

> I hope to put a non-beta release up on Sourceforge in a couple of weeks
> (with new documentation, etc.), but until then, here's a greatly
> abbreviated list of changes and features.  (It's been a while since the
> last official release: 5.0 alpha, August 2007.)

> move hardcoded server URLs into preferences
Hi, I have a problem with the das2 server:

after successfully specifying the URL in the preferences it bombs
after giving login credentials.
The same setup worked with my checked out copy of IGB from a
few months ago. Das2 server is also from this (old) checkout, but
this should not matter?

I also tried it with you server, but:
WARNING: URL is not reachable, and is not cached!
WARNING: Could not find Das2 server http://www.bioviz.org/das2

than you very much,
Ido Tamir


Stacktrace for our Das2 server:

INFO: URL for synonyms: 
http://netaffxdas.affymetrix.com/quickload_data/synonyms.txt
Mar 27, 2009 12:18:26 PM com.affymetrix.igb.Application logInfo
INFO: Found available port for bookmark server: 7085
Attempting login to server: 
http://epx-elephant.imp.univie.ac.at:8080/DAS2/das2
                Das2 Authentication Request: 
http://epx-elephant.imp.univie.ac.at:8080/DAS2/das2/login
        Attempting login
                Das2 Authentication Request: 
http://epx-elephant.imp.univie.ac.at:8080/DAS2/das2/login?user=xxxxxxxxx&password=xxxxxxxxxx
                Authenticated? true
                SessionId: JSESSIONID=190CCB7B8354E5E42FED51C0BB29020E
Exception in thread "AWT-EventQueue-0" java.lang.NullPointerException
        at 
com.affymetrix.igb.view.load.GeneralLoadView.refreshVersionCB(GeneralLoadView.java:537)
        at 
com.affymetrix.igb.view.load.GeneralLoadView.addServer(GeneralLoadView.java:225)
        at 
com.affymetrix.igb.view.DataLoadPrefsView.addToPreferences(DataLoadPrefsView.java:350)
        at 
com.affymetrix.igb.view.DataLoadPrefsView.addServer(DataLoadPrefsView.java:331)
        at com.affymetrix.igb.view.DataLoadPrefsView.access$200
(DataLoadPrefsView.java:42)
        at 
com.affymetrix.igb.view.DataLoadPrefsView$5.actionPerformed(DataLoadPrefsView.java:292)
        at 
javax.swing.AbstractButton.fireActionPerformed(AbstractButton.java:1995)
        at 
javax.swing.AbstractButton$Handler.actionPerformed(AbstractButton.java:2318)
        at 
javax.swing.DefaultButtonModel.fireActionPerformed(DefaultButtonModel.java:387)
        at 
javax.swing.DefaultButtonModel.setPressed(DefaultButtonModel.java:242)
        at 
javax.swing.plaf.basic.BasicButtonListener.mouseReleased(BasicButtonListener.java:236)
        at java.awt.Component.processMouseEvent(Component.java:6134)
        at javax.swing.JComponent.processMouseEvent(JComponent.java:3265)
        at java.awt.Component.processEvent(Component.java:5899)
        at java.awt.Container.processEvent(Container.java:2023)
        at java.awt.Component.dispatchEventImpl(Component.java:4501)
        at java.awt.Container.dispatchEventImpl(Container.java:2081)
        at java.awt.Component.dispatchEvent(Component.java:4331)
        at 
java.awt.LightweightDispatcher.retargetMouseEvent(Container.java:4301)
        at 
java.awt.LightweightDispatcher.processMouseEvent(Container.java:3965)
        at java.awt.LightweightDispatcher.dispatchEvent(Container.java:3895)
        at java.awt.Container.dispatchEventImpl(Container.java:2067)
        at java.awt.Window.dispatchEventImpl(Window.java:2458)
        at java.awt.Component.dispatchEvent(Component.java:4331)
        at java.awt.EventQueue.dispatchEvent(EventQueue.java:599)
        at 
java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:269)
        at 
java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:184)
        at 
java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:174)
        at 
java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:169)
        at 
java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:161)
        at java.awt.EventDispatchThread.run(EventDispatchThread.java:122)