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  1. Bug Repository
  2. BUG-662

Preferences> Other options ORF colors throw exceptions

          Details

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

            Description

            Currently, if I try to change the color of any of the ORF elements (BG, stop, orf) in Pref> Other options they throw:

            Exception in thread "AWT-EventQueue-0" java.util.ConcurrentModificationException
            at java.util.AbstractList$Itr.checkForComodification(AbstractList.java:372)
            at java.util.AbstractList$Itr.next(AbstractList.java:343)
            at com.affymetrix.igb.tiers.AffyTieredMap.packTiers(AffyTieredMap.java:185)
            at com.affymetrix.igb.tiers.AffyTieredMap.packTiers(AffyTieredMap.java:166)
            at com.affymetrix.igb.tiers.AffyLabelledTierMap.packTiers(AffyLabelledTierMap.java:148)
            at com.affymetrix.igb.tiers.AffyTieredMap.repack(AffyTieredMap.java:159)
            at com.affymetrix.igb.view.OrfAnalyzer$2$1.actionPerformed(OrfAnalyzer.java:305)
            at com.affymetrix.igb.view.SeqMapView.preserveSelectionAndPerformAction(SeqMapView.java:798)
            at com.affymetrix.igb.view.OrfAnalyzer$2.run(OrfAnalyzer.java:310)
            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$1.doIntersectionPrivilege(AccessControlContext.java:87)
            at java.awt.EventQueue.dispatchEvent(EventQueue.java:647)
            at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:296)
            at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:211)
            at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:201)
            at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:196)
            at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:188)
            at java.awt.EventDispatchThread.run(EventDispatchThread.java:122)
            Exception in thread "AWT-EventQueue-0" java.util.ConcurrentModificationException
            at java.util.AbstractList$Itr.checkForComodification(AbstractList.java:372)
            at java.util.AbstractList$Itr.next(AbstractList.java:343)
            at com.affymetrix.igb.tiers.AffyTieredMap.packTiers(AffyTieredMap.java:211)
            at com.affymetrix.igb.tiers.AffyTieredMap.packTiers(AffyTieredMap.java:166)
            at com.affymetrix.igb.tiers.AffyLabelledTierMap.packTiers(AffyLabelledTierMap.java:148)
            at com.affymetrix.igb.tiers.AffyTieredMap.repack(AffyTieredMap.java:159)
            at com.affymetrix.igb.view.OrfAnalyzer$2$1.actionPerformed(OrfAnalyzer.java:305)
            at com.affymetrix.igb.view.SeqMapView.preserveSelectionAndPerformAction(SeqMapView.java:798)
            at com.affymetrix.igb.view.OrfAnalyzer$2.run(OrfAnalyzer.java:310)
            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$1.doIntersectionPrivilege(AccessControlContext.java:87)
            at java.awt.EventQueue.dispatchEvent(EventQueue.java:647)
            at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:296)
            at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:211)
            at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:201)
            at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:196)
            at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:188)
            at java.awt.EventDispatchThread.run(EventDispatchThread.java:122)
            Exception in thread "AWT-EventQueue-0" java.util.ConcurrentModificationException
            at java.util.AbstractList$Itr.checkForComodification(AbstractList.java:372)
            at java.util.AbstractList$Itr.next(AbstractList.java:343)
            at com.affymetrix.igb.tiers.AffyTieredMap.packTiers(AffyTieredMap.java:211)
            at com.affymetrix.igb.tiers.AffyTieredMap.packTiers(AffyTieredMap.java:166)
            at com.affymetrix.igb.tiers.AffyLabelledTierMap.packTiers(AffyLabelledTierMap.java:148)
            at com.affymetrix.igb.tiers.AffyTieredMap.repack(AffyTieredMap.java:159)
            at com.affymetrix.igb.view.OrfAnalyzer$2$1.actionPerformed(OrfAnalyzer.java:305)
            at com.affymetrix.igb.view.SeqMapView.preserveSelectionAndPerformAction(SeqMapView.java:798)
            at com.affymetrix.igb.view.OrfAnalyzer$2.run(OrfAnalyzer.java:310)
            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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                Issue Links

                relates to

                Task - A task that needs to be done. BUG-609 Preferences > Track default, Other Options and general Preferences issues

                • Blocker - Blocks development and/or testing work, production could not run.
                • Closed

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                    • Assignee:
                      Unassigned
                      Reporter:
                      alyssa Alyssa Gulledge (Inactive)
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                      • Created:
                        Updated:
                        Resolved: