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  1. Jalview
  2. JAL-4312

concurrent modification exceptions during CLI tests

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      Description

      Occasional test failure observed:

      Caused by: java.util.ConcurrentModificationException
      at java.base/java.util.HashMap$HashIterator.nextNode(HashMap.java:1511)
      at java.base/java.util.HashMap$KeyIterator.next(HashMap.java:1534)
      at jalview.workers.AlignCalcManager.getRegisteredWorkersOfClass(AlignCalcManager.java:310)
      at jalview.viewmodel.AlignmentViewport.updateConsensus(AlignmentViewport.java:859)
      at jalview.viewmodel.AlignmentViewport.alignmentChanged(AlignmentViewport.java:1873)
      at jalview.gui.AlignmentPanel.alignmentChanged(AlignmentPanel.java:213)
      at jalview.gui.AlignFrame.setAnnotationsVisibility(AlignFrame.java:5845)
      at jalview.bin.Commands.processLinked(Commands.java:374)
      at jalview.bin.Commands.processArgs(Commands.java:109)
      at jalview.bin.Jalview.doMain(Jalview.java:841)
      at jalview.bin.CommandsTest.callJalviewMain(CommandsTest.java:78)

      There are lots of calls to setAnotationsVisibility - this method was never hardened to be thread safe - but could do some minimal patching.

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              Assignee:
              jprocter James Procter
              Reporter:
              jprocter James Procter
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