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  1. Jalview
  2. JAL-2489

BioJSON export fails on develop

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      Description

      Exporting an alignment as BioJSON in the development branch fails with an NPE.

      Stack trace:
      java.lang.NullPointerException
      at jalview.io.JSONFile.configureForView(JSONFile.java:770)
      at jalview.io.AppletFormatAdapter.formatSequences(AppletFormatAdapter.java:377)
      at jalview.io.FormatAdapter.formatSequences(FormatAdapter.java:226)
      at jalview.io.FormatAdapter.formatSequences(FormatAdapter.java:170)
      at jalview.gui.AlignFrame.outputText_actionPerformed(AlignFrame.java:1263)
      at jalview.jbgui.GAlignFrame$1.actionPerformed(GAlignFrame.java:223)
      at javax.swing.AbstractButton.fireActionPerformed(AbstractButton.java:2022)
      at javax.swing.AbstractButton$Handler.actionPerformed(AbstractButton.java:2346)
      at javax.swing.DefaultButtonModel.fireActionPerformed(DefaultButtonModel.java:402)
      at javax.swing.DefaultButtonModel.setPressed(DefaultButtonModel.java:259)
      at javax.swing.AbstractButton.doClick(AbstractButton.java:376)
      at javax.swing.plaf.basic.BasicMenuItemUI.doClick(BasicMenuItemUI.java:833)
      at com.apple.laf.AquaMenuItemUI.doClick(AquaMenuItemUI.java:157)
      at javax.swing.plaf.basic.BasicMenuItemUI$Handler.mouseReleased(BasicMenuItemUI.java:877)
      at java.awt.Component.processMouseEvent(Component.java:6525)
      at javax.swing.JComponent.processMouseEvent(JComponent.java:3321)
      at java.awt.Component.processEvent(Component.java:6290)
      at java.awt.Container.processEvent(Container.java:2234)
      at java.awt.Component.dispatchEventImpl(Component.java:4881)
      at java.awt.Container.dispatchEventImpl(Container.java:2292)
      at java.awt.Component.dispatchEvent(Component.java:4703)
      at java.awt.LightweightDispatcher.retargetMouseEvent(Container.java:4898)
      at java.awt.LightweightDispatcher.processMouseEvent(Container.java:4533)
      at java.awt.LightweightDispatcher.dispatchEvent(Container.java:4462)
      at java.awt.Container.dispatchEventImpl(Container.java:2278)
      at java.awt.Window.dispatchEventImpl(Window.java:2739)
      at java.awt.Component.dispatchEvent(Component.java:4703)
      at java.awt.EventQueue.dispatchEventImpl(EventQueue.java:746)
      at java.awt.EventQueue.access$400(EventQueue.java:97)
      at java.awt.EventQueue$3.run(EventQueue.java:697)
      at java.awt.EventQueue$3.run(EventQueue.java:691)
      at java.security.AccessController.doPrivileged(Native Method)
      at java.security.ProtectionDomain$1.doIntersectionPrivilege(ProtectionDomain.java:75)
      at java.security.ProtectionDomain$1.doIntersectionPrivilege(ProtectionDomain.java:86)
      at java.awt.EventQueue$4.run(EventQueue.java:719)
      at java.awt.EventQueue$4.run(EventQueue.java:717)
      at java.security.AccessController.doPrivileged(Native Method)
      at java.security.ProtectionDomain$1.doIntersectionPrivilege(ProtectionDomain.java:75)
      at java.awt.EventQueue.dispatchEvent(EventQueue.java:716)
      at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:201)
      at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:116)
      at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:105)
      at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:101)
      at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:93)
      at java.awt.EventDispatchThread.run(EventDispatchThread.java:82)

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              Assignee:
              gmungoc Mungo Carstairs
              Reporter:
              tcnofoegbu Tochukwu Charles N Ofoegbu
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                Dates

                Created:
                Updated:
                Resolved: