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  1. Bug Repository
  2. BUG-423

if you 'clear data from track' and then reload the same data, you get an NPE

    Details

    • Type: Bug
    • Status: Closed (View Workflow)
    • Priority: Major
    • Resolution: Fixed
    • Labels:
      None

      Description

      Load a few tracks. clear data from track. Then reload (without moving or zooming out)

      Exception in thread "AWT-EventQueue-0" java.lang.NullPointerException
      at java.util.concurrent.CopyOnWriteArrayList.<init>(CopyOnWriteArrayList.java:91)
      at com.affymetrix.genometryImpl.symmetry.SimpleSeqSymmetry.equals(SimpleSeqSymmetry.java:123)
      at com.affymetrix.genometryImpl.symmetry.SimpleSymWithProps.equals(SimpleSymWithProps.java:122)
      at com.affymetrix.genometryImpl.symmetry.GraphSym.equals(GraphSym.java:615)
      at java.util.HashMap.get(HashMap.java:305)
      at com.affymetrix.igb.shared.GraphGlyphUtils.getPercents2Scores(GraphGlyphUtils.java:136)
      at com.affymetrix.igb.shared.GraphGlyphUtils.getPercentForValue(GraphGlyphUtils.java:166)
      at com.affymetrix.igb.trackAdjuster.GraphVisibleBoundsSetter.initPercents(GraphVisibleBoundsSetter.java:309)
      at com.affymetrix.igb.trackAdjuster.GraphVisibleBoundsSetter.setGraphs(GraphVisibleBoundsSetter.java:189)
      at com.affymetrix.igb.trackAdjuster.TrackAdjusterTab.resetGraphAndRangePanel(TrackAdjusterTab.java:499)
      at com.affymetrix.igb.trackAdjuster.TrackAdjusterTab.refreshSelection(TrackAdjusterTab.java:310)
      at com.affymetrix.igb.trackAdjuster.TrackAdjusterTab.trackstylePropertyChanged(TrackAdjusterTab.java:808)
      at com.affymetrix.igb.shared.TrackstylePropertyMonitor.firePropertyChanged(TrackstylePropertyMonitor.java:47)
      at com.affymetrix.igb.shared.TrackstylePropertyMonitor.tableChanged(TrackstylePropertyMonitor.java:29)
      at javax.swing.table.AbstractTableModel.fireTableChanged(AbstractTableModel.java:280)
      at javax.swing.table.AbstractTableModel.fireTableDataChanged(AbstractTableModel.java:182)
      at com.affymetrix.igb.view.load.DataManagementTableModel.createVirtualFeatures(DataManagementTableModel.java:91)
      at com.affymetrix.igb.view.load.GeneralLoadView$5.run(GeneralLoadView.java:448)
      at com.affymetrix.genometryImpl.util.ThreadUtils.runOnEventQueue(ThreadUtils.java:29)
      at com.affymetrix.igb.view.load.GeneralLoadView.refreshDataManagementTable(GeneralLoadView.java:444)
      at com.affymetrix.igb.view.load.GeneralLoadView.refreshDataManagementView(GeneralLoadView.java:456)
      at com.affymetrix.igb.view.load.GeneralLoadUtils$3.finished(GeneralLoadUtils.java:781)
      at com.affymetrix.genometryImpl.thread.CThreadWorker.done(CThreadWorker.java:41)
      at javax.swing.SwingWorker$5.run(SwingWorker.java:717)
      at javax.swing.SwingWorker$DoSubmitAccumulativeRunnable.run(SwingWorker.java:814)
      at sun.swing.AccumulativeRunnable.run(AccumulativeRunnable.java:95)
      at javax.swing.SwingWorker$DoSubmitAccumulativeRunnable.actionPerformed(SwingWorker.java:824)
      at javax.swing.Timer.fireActionPerformed(Timer.java:291)
      at javax.swing.Timer$DoPostEvent.run(Timer.java:221)
      at java.awt.event.InvocationEvent.dispatch(InvocationEvent.java:209)
      at java.awt.EventQueue.dispatchEventImpl(EventQueue.java:677)
      at java.awt.EventQueue.access$000(EventQueue.java:85)
      at java.awt.EventQueue$1.run(EventQueue.java:638)
      at java.awt.EventQueue$1.run(EventQueue.java:636)
      at java.security.AccessController.doPrivileged(Native Method)
      at java.security.AccessControlContext$1.doIntersectionPrivilege(AccessControlContext.java:87)
      at java.awt.EventQueue.dispatchEvent(EventQueue.java:647)
      at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:296)
      at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:211)
      at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:201)
      at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:196)
      at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:188)
      at java.awt.EventDispatchThread.run(EventDispatchThread.java:122)

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            Hide
            darius darius added a comment -

            Passed 7.0.0 (11934)

            Show
            darius darius added a comment - Passed 7.0.0 (11934)
            Hide
            lfrohman Lance Frohman (Inactive) added a comment -

            fixed, please give steps to
            reproduce if it happens again.

            Show
            lfrohman Lance Frohman (Inactive) added a comment - fixed, please give steps to reproduce if it happens again.
            Hide
            hiralv Hiral Vora (Inactive) added a comment -

            This is similar to https://igbjira.uncc.edu/jira/browse/IGBC-219 which is already assigned to you.

            Show
            hiralv Hiral Vora (Inactive) added a comment - This is similar to https://igbjira.uncc.edu/jira/browse/IGBC-219 which is already assigned to you.

              People

              • Assignee:
                Unassigned
                Reporter:
                alyssa Alyssa Gulledge (Inactive)
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                Dates

                • Created:
                  Updated:
                  Resolved: