Details
-
Type:
Bug
-
Status: Closed (View Workflow)
-
Priority:
Major
-
Resolution: Fixed
-
Labels:None
-
Environment:
Windows 9915
Description
This is a Windows error, not a Mac error.
Load A_thaliana_Jun_2009
Click 'Sample BAM file' under IGB quickload >RNA-Seq in Data Sources panel
Zoom in and load
Rt click on Sample BAM filetrack label and everything looks fine
Preferences -> Tracks -> Change FG color of BAM file.
Color updates but when rt clicking on Sample BAM label again and rt click menu is half gone (attached photo) and the error below is thrown.
The same error is also thrown when:
- Any BG or FG color adjustment is made to any track from the 'Track List' table or from the 'Properties' sub panel. This also includes the coordinate track.
- If color is activated from the 'Show Strand' sub panel
- If the '+' or '-' colors are adjusted
- When any BG or FG color adjustment is made to the track default list and then 'Restore to default' is clicked
- Any BG or FG color adjustment is made to any track listed in the 'Data Management Table'
- Any color adjustment is made to 'Coordinates' colors, 'Residue Colors', 'ORF Analyzer' Colors, or 'Edge Match' color
- Any of the above adjustments made to local files (either desktop or URL) will also cause the error.
There is no error thrown if:
- Any size adjustment is made to any track from the 'Track List' or 'Properties' sub panels
- If arrow is checked under the 'Show Strand' sub panel
- Any BG or FG color adjustment made to any track listed from rt click -> change -> color DOES NOT throw an error.
Error trace attached as file (it is huge)
Attachments
Activity
| Field | Original Value | New Value |
|---|---|---|
| Assignee | Alyssa Gulledge [ alyssa ] |
| Description |
Load A_thaliana_Jun_2009 Click 'Sample BAM file' under 'RNA-Seq' in 'Data Sources' panel Zoom in and load Right click on"RNA-SEQ/Sample BAM file(+/-) and everything looks fine File -> Preferences -> Track Defaults -> 'Add' and add the 'bam' file type Right click on"RNA-SEQ/Sample BAM file(+/-) again and everything still looks fine File -> Preferences -> Track Defaults -> adjust colors of BG/FG for the 'bam' file type, then go to 'Tracks' tab and click 'Restore to default' Color is updated for 'bam; file type Right click on"RNA-SEQ/Sample BAM file(+/-) again and right click menu is half gone (attached photo) and this error is thrown: UIDefaults.getUI() failed: no ComponentUI class for: javax.swing.JMenu[,0,0,0x0,invalid,alignmentX=0.0,alignmentY=0.0,border=,flags=0,maximumSize=,minimumSize=,preferredSize=,defaultIcon=,disabledIcon=,disabledSelectedIcon=,margin=null,paintBorder=false,paintFocus=false,pressedIcon=,rolloverEnabled=false,rolloverIcon=,rolloverSelectedIcon=,selectedIcon=,text=Track Operations] java.lang.Error at javax.swing.UIDefaults.getUIError(Unknown Source) at javax.swing.MultiUIDefaults.getUIError(Unknown Source) at javax.swing.UIDefaults.getUI(Unknown Source) at javax.swing.UIManager.getUI(Unknown Source) at javax.swing.JMenu.updateUI(Unknown Source) at javax.swing.JMenuItem.init(Unknown Source) at javax.swing.JMenuItem.<init>(Unknown Source) at javax.swing.JMenuItem.<init>(Unknown Source) at javax.swing.JMenu.<init>(Unknown Source) at com.affymetrix.igb.tiers.TierArithmetic.popupNotify(TierArithmetic.java:33) at com.affymetrix.igb.tiers.TierLabelManager.doPopup(TierLabelManager.java:585) at com.affymetrix.igb.tiers.TierLabelManager$2.mousePressed(TierLabelManager.java:170) at com.affymetrix.genoviz.widget.NeoWidget.heardMouseEvent(NeoWidget.java:1277) at com.affymetrix.genoviz.widget.NeoMap.heardMouseEvent(NeoMap.java:1539) at com.affymetrix.genoviz.widget.NeoAbstractWidget.mousePressed(NeoAbstractWidget.java:814) at com.affymetrix.genoviz.bioviews.View.heardMouseEvent(View.java:917) at com.affymetrix.genoviz.bioviews.View.mousePressed(View.java:833) at java.awt.Component.processMouseEvent(Unknown Source) at javax.swing.JComponent.processMouseEvent(Unknown Source) at java.awt.Component.processEvent(Unknown Source) at java.awt.Container.processEvent(Unknown Source) at java.awt.Component.dispatchEventImpl(Unknown Source) at java.awt.Container.dispatchEventImpl(Unknown Source) at java.awt.Component.dispatchEvent(Unknown Source) at java.awt.LightweightDispatcher.retargetMouseEvent(Unknown Source) at java.awt.LightweightDispatcher.processMouseEvent(Unknown Source) at java.awt.LightweightDispatcher.dispatchEvent(Unknown Source) at java.awt.Container.dispatchEventImpl(Unknown Source) at java.awt.Window.dispatchEventImpl(Unknown Source) at java.awt.Component.dispatchEvent(Unknown Source) at java.awt.EventQueue.dispatchEventImpl(Unknown Source) at java.awt.EventQueue.access$000(Unknown Source) at java.awt.EventQueue$1.run(Unknown Source) at java.awt.EventQueue$1.run(Unknown Source) at java.security.AccessController.doPrivileged(Native Method) at java.security.AccessControlContext$1.doIntersectionPrivilege(Unknown Source) at java.security.AccessControlContext$1.doIntersectionPrivilege(Unknown Source) at java.awt.EventQueue$2.run(Unknown Source) at java.awt.EventQueue$2.run(Unknown Source) at java.security.AccessController.doPrivileged(Native Method) at java.security.AccessControlContext$1.doIntersectionPrivilege(Unknown Source) at java.awt.EventQueue.dispatchEvent(Unknown Source) at java.awt.EventDispatchThread.pumpOneEventForFilters(Unknown Source) at java.awt.EventDispatchThread.pumpEventsForFilter(Unknown Source) at java.awt.EventDispatchThread.pumpEventsForHierarchy(Unknown Source) at java.awt.EventDispatchThread.pumpEvents(Unknown Source) at java.awt.EventDispatchThread.pumpEvents(Unknown Source) at java.awt.EventDispatchThread.run(Unknown Source) UIDefaults.getUI() failed: no ComponentUI class for: javax.swing.JMenu[,0,0,0x0,invalid,alignmentX=0.0,alignmentY=0.0,border=,flags=0,maximumSize=,minimumSize=,preferredSize=,defaultIcon=,disabledIcon=,disabledSelectedIcon=,margin=null,paintBorder=false,paintFocus=false,pressedIcon=,rolloverEnabled=false,rolloverIcon=,rolloverSelectedIcon=,selectedIcon=,text=Save Annotations] java.lang.Error at javax.swing.UIDefaults.getUIError(Unknown Source) at javax.swing.MultiUIDefaults.getUIError(Unknown Source) at javax.swing.UIDefaults.getUI(Unknown Source) at javax.swing.UIManager.getUI(Unknown Source) at javax.swing.JMenu.updateUI(Unknown Source) at javax.swing.JMenuItem.init(Unknown Source) at javax.swing.JMenuItem.<init>(Unknown Source) at javax.swing.JMenuItem.<init>(Unknown Source) at javax.swing.JMenu.<init>(Unknown Source) at com.affymetrix.igb.tiers.SeqMapViewPopup.popupNotify(SeqMapViewPopup.java:1102) at com.affymetrix.igb.tiers.TierLabelManager.doPopup(TierLabelManager.java:585) at com.affymetrix.igb.tiers.TierLabelManager$2.mousePressed(TierLabelManager.java:170) at com.affymetrix.genoviz.widget.NeoWidget.heardMouseEvent(NeoWidget.java:1277) at com.affymetrix.genoviz.widget.NeoMap.heardMouseEvent(NeoMap.java:1539) at com.affymetrix.genoviz.widget.NeoAbstractWidget.mousePressed(NeoAbstractWidget.java:814) at com.affymetrix.genoviz.bioviews.View.heardMouseEvent(View.java:917) at com.affymetrix.genoviz.bioviews.View.mousePressed(View.java:833) at java.awt.Component.processMouseEvent(Unknown Source) at javax.swing.JComponent.processMouseEvent(Unknown Source) at java.awt.Component.processEvent(Unknown Source) at java.awt.Container.processEvent(Unknown Source) at java.awt.Component.dispatchEventImpl(Unknown Source) at java.awt.Container.dispatchEventImpl(Unknown Source) at java.awt.Component.dispatchEvent(Unknown Source) at java.awt.LightweightDispatcher.retargetMouseEvent(Unknown Source) at java.awt.LightweightDispatcher.processMouseEvent(Unknown Source) at java.awt.LightweightDispatcher.dispatchEvent(Unknown Source) at java.awt.Container.dispatchEventImpl(Unknown Source) at java.awt.Window.dispatchEventImpl(Unknown Source) at java.awt.Component.dispatchEvent(Unknown Source) at java.awt.EventQueue.dispatchEventImpl(Unknown Source) at java.awt.EventQueue.access$000(Unknown Source) at java.awt.EventQueue$1.run(Unknown Source) at java.awt.EventQueue$1.run(Unknown Source) at java.security.AccessController.doPrivileged(Native Method) at java.security.AccessControlContext$1.doIntersectionPrivilege(Unknown Source) at java.security.AccessControlContext$1.doIntersectionPrivilege(Unknown Source) at java.awt.EventQueue$2.run(Unknown Source) at java.awt.EventQueue$2.run(Unknown Source) at java.security.AccessController.doPrivileged(Native Method) at java.security.AccessControlContext$1.doIntersectionPrivilege(Unknown Source) at java.awt.EventQueue.dispatchEvent(Unknown Source) at java.awt.EventDispatchThread.pumpOneEventForFilters(Unknown Source) at java.awt.EventDispatchThread.pumpEventsForFilter(Unknown Source) at java.awt.EventDispatchThread.pumpEventsForHierarchy(Unknown Source) at java.awt.EventDispatchThread.pumpEvents(Unknown Source) at java.awt.EventDispatchThread.pumpEvents(Unknown Source) at java.awt.EventDispatchThread.run(Unknown Source) UIDefaults.getUI() failed: no ComponentUI class for: javax.swing.JCheckBoxMenuItem[,0,0,0x0,invalid,alignmentX=0.0,alignmentY=0.0,border=,flags=0,maximumSize=,minimumSize=,preferredSize=,defaultIcon=,disabledIcon=,disabledSelectedIcon=,margin=null,paintBorder=false,paintFocus=false,pressedIcon=,rolloverEnabled=false,rolloverIcon=,rolloverSelectedIcon=,selectedIcon=,text=] java.lang.Error at javax.swing.UIDefaults.getUIError(Unknown Source) at javax.swing.MultiUIDefaults.getUIError(Unknown Source) at javax.swing.UIDefaults.getUI(Unknown Source) at javax.swing.UIManager.getUI(Unknown Source) at javax.swing.JMenuItem.updateUI(Unknown Source) at javax.swing.JMenuItem.init(Unknown Source) at javax.swing.JMenuItem.<init>(Unknown Source) at javax.swing.JCheckBoxMenuItem.<init>(Unknown Source) at javax.swing.JCheckBoxMenuItem.<init>(Unknown Source) at javax.swing.JCheckBoxMenuItem.<init>(Unknown Source) at com.affymetrix.igb.tiers.SeqMapViewPopup.popupNotify(SeqMapViewPopup.java:1142) at com.affymetrix.igb.tiers.TierLabelManager.doPopup(TierLabelManager.java:585) at com.affymetrix.igb.tiers.TierLabelManager$2.mousePressed(TierLabelManager.java:170) at com.affymetrix.genoviz.widget.NeoWidget.heardMouseEvent(NeoWidget.java:1277) at com.affymetrix.genoviz.widget.NeoMap.heardMouseEvent(NeoMap.java:1539) at com.affymetrix.genoviz.widget.NeoAbstractWidget.mousePressed(NeoAbstractWidget.java:814) at com.affymetrix.genoviz.bioviews.View.heardMouseEvent(View.java:917) at com.affymetrix.genoviz.bioviews.View.mousePressed(View.java:833) at java.awt.Component.processMouseEvent(Unknown Source) at javax.swing.JComponent.processMouseEvent(Unknown Source) at java.awt.Component.processEvent(Unknown Source) at java.awt.Container.processEvent(Unknown Source) at java.awt.Component.dispatchEventImpl(Unknown Source) at java.awt.Container.dispatchEventImpl(Unknown Source) at java.awt.Component.dispatchEvent(Unknown Source) at java.awt.LightweightDispatcher.retargetMouseEvent(Unknown Source) at java.awt.LightweightDispatcher.processMouseEvent(Unknown Source) at java.awt.LightweightDispatcher.dispatchEvent(Unknown Source) at java.awt.Container.dispatchEventImpl(Unknown Source) at java.awt.Window.dispatchEventImpl(Unknown Source) at java.awt.Component.dispatchEvent(Unknown Source) at java.awt.EventQueue.dispatchEventImpl(Unknown Source) at java.awt.EventQueue.access$000(Unknown Source) at java.awt.EventQueue$1.run(Unknown Source) at java.awt.EventQueue$1.run(Unknown Source) at java.security.AccessController.doPrivileged(Native Method) at java.security.AccessControlContext$1.doIntersectionPrivilege(Unknown Source) at java.security.AccessControlContext$1.doIntersectionPrivilege(Unknown Source) at java.awt.EventQueue$2.run(Unknown Source) at java.awt.EventQueue$2.run(Unknown Source) at java.security.AccessController.doPrivileged(Native Method) at java.security.AccessControlContext$1.doIntersectionPrivilege(Unknown Source) at java.awt.EventQueue.dispatchEvent(Unknown Source) at java.awt.EventDispatchThread.pumpOneEventForFilters(Unknown Source) at java.awt.EventDispatchThread.pumpEventsForFilter(Unknown Source) at java.awt.EventDispatchThread.pumpEventsForHierarchy(Unknown Source) at java.awt.EventDispatchThread.pumpEvents(Unknown Source) at java.awt.EventDispatchThread.pumpEvents(Unknown Source) at java.awt.EventDispatchThread.run(Unknown Source) |
Load A_thaliana_Jun_2009 Click 'Sample BAM file' under IGB quickload >RNA-Seq in Data Sources panel Zoom in and load Right click on Sample BAM filetrack label and everything looks fine File -> Preferences -> Track Defaults -> Add bam file type and change BG/FG, then go to 'Tracks' tab and click Restore to default. Color is updated. However, right click on Sample BAM label again and right click menu is half gone (attached photo) and this error is thrown: UIDefaults.getUI() failed: no ComponentUI class for: javax.swing.JMenu[,0,0,0x0,invalid,alignmentX=0.0,alignmentY=0.0,border=,flags=0,maximumSize=,minimumSize=,preferredSize=,defaultIcon=,disabledIcon=,disabledSelectedIcon=,margin=null,paintBorder=false,paintFocus=false,pressedIcon=,rolloverEnabled=false,rolloverIcon=,rolloverSelectedIcon=,selectedIcon=,text=Track Operations] java.lang.Error at javax.swing.UIDefaults.getUIError(Unknown Source) at javax.swing.MultiUIDefaults.getUIError(Unknown Source) at javax.swing.UIDefaults.getUI(Unknown Source) at javax.swing.UIManager.getUI(Unknown Source) at javax.swing.JMenu.updateUI(Unknown Source) at javax.swing.JMenuItem.init(Unknown Source) at javax.swing.JMenuItem.<init>(Unknown Source) at javax.swing.JMenuItem.<init>(Unknown Source) at javax.swing.JMenu.<init>(Unknown Source) at com.affymetrix.igb.tiers.TierArithmetic.popupNotify(TierArithmetic.java:33) at com.affymetrix.igb.tiers.TierLabelManager.doPopup(TierLabelManager.java:585) at com.affymetrix.igb.tiers.TierLabelManager$2.mousePressed(TierLabelManager.java:170) at com.affymetrix.genoviz.widget.NeoWidget.heardMouseEvent(NeoWidget.java:1277) at com.affymetrix.genoviz.widget.NeoMap.heardMouseEvent(NeoMap.java:1539) at com.affymetrix.genoviz.widget.NeoAbstractWidget.mousePressed(NeoAbstractWidget.java:814) at com.affymetrix.genoviz.bioviews.View.heardMouseEvent(View.java:917) at com.affymetrix.genoviz.bioviews.View.mousePressed(View.java:833) at java.awt.Component.processMouseEvent(Unknown Source) at javax.swing.JComponent.processMouseEvent(Unknown Source) at java.awt.Component.processEvent(Unknown Source) at java.awt.Container.processEvent(Unknown Source) at java.awt.Component.dispatchEventImpl(Unknown Source) at java.awt.Container.dispatchEventImpl(Unknown Source) at java.awt.Component.dispatchEvent(Unknown Source) at java.awt.LightweightDispatcher.retargetMouseEvent(Unknown Source) at java.awt.LightweightDispatcher.processMouseEvent(Unknown Source) at java.awt.LightweightDispatcher.dispatchEvent(Unknown Source) at java.awt.Container.dispatchEventImpl(Unknown Source) at java.awt.Window.dispatchEventImpl(Unknown Source) at java.awt.Component.dispatchEvent(Unknown Source) at java.awt.EventQueue.dispatchEventImpl(Unknown Source) at java.awt.EventQueue.access$000(Unknown Source) at java.awt.EventQueue$1.run(Unknown Source) at java.awt.EventQueue$1.run(Unknown Source) at java.security.AccessController.doPrivileged(Native Method) at java.security.AccessControlContext$1.doIntersectionPrivilege(Unknown Source) at java.security.AccessControlContext$1.doIntersectionPrivilege(Unknown Source) at java.awt.EventQueue$2.run(Unknown Source) at java.awt.EventQueue$2.run(Unknown Source) at java.security.AccessController.doPrivileged(Native Method) at java.security.AccessControlContext$1.doIntersectionPrivilege(Unknown Source) at java.awt.EventQueue.dispatchEvent(Unknown Source) at java.awt.EventDispatchThread.pumpOneEventForFilters(Unknown Source) at java.awt.EventDispatchThread.pumpEventsForFilter(Unknown Source) at java.awt.EventDispatchThread.pumpEventsForHierarchy(Unknown Source) at java.awt.EventDispatchThread.pumpEvents(Unknown Source) at java.awt.EventDispatchThread.pumpEvents(Unknown Source) at java.awt.EventDispatchThread.run(Unknown Source) UIDefaults.getUI() failed: no ComponentUI class for: javax.swing.JMenu[,0,0,0x0,invalid,alignmentX=0.0,alignmentY=0.0,border=,flags=0,maximumSize=,minimumSize=,preferredSize=,defaultIcon=,disabledIcon=,disabledSelectedIcon=,margin=null,paintBorder=false,paintFocus=false,pressedIcon=,rolloverEnabled=false,rolloverIcon=,rolloverSelectedIcon=,selectedIcon=,text=Save Annotations] java.lang.Error at javax.swing.UIDefaults.getUIError(Unknown Source) at javax.swing.MultiUIDefaults.getUIError(Unknown Source) at javax.swing.UIDefaults.getUI(Unknown Source) at javax.swing.UIManager.getUI(Unknown Source) at javax.swing.JMenu.updateUI(Unknown Source) at javax.swing.JMenuItem.init(Unknown Source) at javax.swing.JMenuItem.<init>(Unknown Source) at javax.swing.JMenuItem.<init>(Unknown Source) at javax.swing.JMenu.<init>(Unknown Source) at com.affymetrix.igb.tiers.SeqMapViewPopup.popupNotify(SeqMapViewPopup.java:1102) at com.affymetrix.igb.tiers.TierLabelManager.doPopup(TierLabelManager.java:585) at com.affymetrix.igb.tiers.TierLabelManager$2.mousePressed(TierLabelManager.java:170) at com.affymetrix.genoviz.widget.NeoWidget.heardMouseEvent(NeoWidget.java:1277) at com.affymetrix.genoviz.widget.NeoMap.heardMouseEvent(NeoMap.java:1539) at com.affymetrix.genoviz.widget.NeoAbstractWidget.mousePressed(NeoAbstractWidget.java:814) at com.affymetrix.genoviz.bioviews.View.heardMouseEvent(View.java:917) at com.affymetrix.genoviz.bioviews.View.mousePressed(View.java:833) at java.awt.Component.processMouseEvent(Unknown Source) at javax.swing.JComponent.processMouseEvent(Unknown Source) at java.awt.Component.processEvent(Unknown Source) at java.awt.Container.processEvent(Unknown Source) at java.awt.Component.dispatchEventImpl(Unknown Source) at java.awt.Container.dispatchEventImpl(Unknown Source) at java.awt.Component.dispatchEvent(Unknown Source) at java.awt.LightweightDispatcher.retargetMouseEvent(Unknown Source) at java.awt.LightweightDispatcher.processMouseEvent(Unknown Source) at java.awt.LightweightDispatcher.dispatchEvent(Unknown Source) at java.awt.Container.dispatchEventImpl(Unknown Source) at java.awt.Window.dispatchEventImpl(Unknown Source) at java.awt.Component.dispatchEvent(Unknown Source) at java.awt.EventQueue.dispatchEventImpl(Unknown Source) at java.awt.EventQueue.access$000(Unknown Source) at java.awt.EventQueue$1.run(Unknown Source) at java.awt.EventQueue$1.run(Unknown Source) at java.security.AccessController.doPrivileged(Native Method) at java.security.AccessControlContext$1.doIntersectionPrivilege(Unknown Source) at java.security.AccessControlContext$1.doIntersectionPrivilege(Unknown Source) at java.awt.EventQueue$2.run(Unknown Source) at java.awt.EventQueue$2.run(Unknown Source) at java.security.AccessController.doPrivileged(Native Method) at java.security.AccessControlContext$1.doIntersectionPrivilege(Unknown Source) at java.awt.EventQueue.dispatchEvent(Unknown Source) at java.awt.EventDispatchThread.pumpOneEventForFilters(Unknown Source) at java.awt.EventDispatchThread.pumpEventsForFilter(Unknown Source) at java.awt.EventDispatchThread.pumpEventsForHierarchy(Unknown Source) at java.awt.EventDispatchThread.pumpEvents(Unknown Source) at java.awt.EventDispatchThread.pumpEvents(Unknown Source) at java.awt.EventDispatchThread.run(Unknown Source) UIDefaults.getUI() failed: no ComponentUI class for: javax.swing.JCheckBoxMenuItem[,0,0,0x0,invalid,alignmentX=0.0,alignmentY=0.0,border=,flags=0,maximumSize=,minimumSize=,preferredSize=,defaultIcon=,disabledIcon=,disabledSelectedIcon=,margin=null,paintBorder=false,paintFocus=false,pressedIcon=,rolloverEnabled=false,rolloverIcon=,rolloverSelectedIcon=,selectedIcon=,text=] java.lang.Error at javax.swing.UIDefaults.getUIError(Unknown Source) at javax.swing.MultiUIDefaults.getUIError(Unknown Source) at javax.swing.UIDefaults.getUI(Unknown Source) at javax.swing.UIManager.getUI(Unknown Source) at javax.swing.JMenuItem.updateUI(Unknown Source) at javax.swing.JMenuItem.init(Unknown Source) at javax.swing.JMenuItem.<init>(Unknown Source) at javax.swing.JCheckBoxMenuItem.<init>(Unknown Source) at javax.swing.JCheckBoxMenuItem.<init>(Unknown Source) at javax.swing.JCheckBoxMenuItem.<init>(Unknown Source) at com.affymetrix.igb.tiers.SeqMapViewPopup.popupNotify(SeqMapViewPopup.java:1142) at com.affymetrix.igb.tiers.TierLabelManager.doPopup(TierLabelManager.java:585) at com.affymetrix.igb.tiers.TierLabelManager$2.mousePressed(TierLabelManager.java:170) at com.affymetrix.genoviz.widget.NeoWidget.heardMouseEvent(NeoWidget.java:1277) at com.affymetrix.genoviz.widget.NeoMap.heardMouseEvent(NeoMap.java:1539) at com.affymetrix.genoviz.widget.NeoAbstractWidget.mousePressed(NeoAbstractWidget.java:814) at com.affymetrix.genoviz.bioviews.View.heardMouseEvent(View.java:917) at com.affymetrix.genoviz.bioviews.View.mousePressed(View.java:833) at java.awt.Component.processMouseEvent(Unknown Source) at javax.swing.JComponent.processMouseEvent(Unknown Source) at java.awt.Component.processEvent(Unknown Source) at java.awt.Container.processEvent(Unknown Source) at java.awt.Component.dispatchEventImpl(Unknown Source) at java.awt.Container.dispatchEventImpl(Unknown Source) at java.awt.Component.dispatchEvent(Unknown Source) at java.awt.LightweightDispatcher.retargetMouseEvent(Unknown Source) at java.awt.LightweightDispatcher.processMouseEvent(Unknown Source) at java.awt.LightweightDispatcher.dispatchEvent(Unknown Source) at java.awt.Container.dispatchEventImpl(Unknown Source) at java.awt.Window.dispatchEventImpl(Unknown Source) at java.awt.Component.dispatchEvent(Unknown Source) at java.awt.EventQueue.dispatchEventImpl(Unknown Source) at java.awt.EventQueue.access$000(Unknown Source) at java.awt.EventQueue$1.run(Unknown Source) at java.awt.EventQueue$1.run(Unknown Source) at java.security.AccessController.doPrivileged(Native Method) at java.security.AccessControlContext$1.doIntersectionPrivilege(Unknown Source) at java.security.AccessControlContext$1.doIntersectionPrivilege(Unknown Source) at java.awt.EventQueue$2.run(Unknown Source) at java.awt.EventQueue$2.run(Unknown Source) at java.security.AccessController.doPrivileged(Native Method) at java.security.AccessControlContext$1.doIntersectionPrivilege(Unknown Source) at java.awt.EventQueue.dispatchEvent(Unknown Source) at java.awt.EventDispatchThread.pumpOneEventForFilters(Unknown Source) at java.awt.EventDispatchThread.pumpEventsForFilter(Unknown Source) at java.awt.EventDispatchThread.pumpEventsForHierarchy(Unknown Source) at java.awt.EventDispatchThread.pumpEvents(Unknown Source) at java.awt.EventDispatchThread.pumpEvents(Unknown Source) at java.awt.EventDispatchThread.run(Unknown Source) |
| Assignee | Alyssa Gulledge [ alyssa ] | Katharine Kubiak [ kkubiak ] |
| Summary | After adjusting 'Track Defaults' right click not working and throws error | Color adjustments made in Data Management Table OR Pref -> Tracks cause errors |
| Attachment | error.docx [ 10580 ] | |
| Description |
Load A_thaliana_Jun_2009 Click 'Sample BAM file' under IGB quickload >RNA-Seq in Data Sources panel Zoom in and load Right click on Sample BAM filetrack label and everything looks fine File -> Preferences -> Track Defaults -> Add bam file type and change BG/FG, then go to 'Tracks' tab and click Restore to default. Color is updated. However, right click on Sample BAM label again and right click menu is half gone (attached photo) and this error is thrown: UIDefaults.getUI() failed: no ComponentUI class for: javax.swing.JMenu[,0,0,0x0,invalid,alignmentX=0.0,alignmentY=0.0,border=,flags=0,maximumSize=,minimumSize=,preferredSize=,defaultIcon=,disabledIcon=,disabledSelectedIcon=,margin=null,paintBorder=false,paintFocus=false,pressedIcon=,rolloverEnabled=false,rolloverIcon=,rolloverSelectedIcon=,selectedIcon=,text=Track Operations] java.lang.Error at javax.swing.UIDefaults.getUIError(Unknown Source) at javax.swing.MultiUIDefaults.getUIError(Unknown Source) at javax.swing.UIDefaults.getUI(Unknown Source) at javax.swing.UIManager.getUI(Unknown Source) at javax.swing.JMenu.updateUI(Unknown Source) at javax.swing.JMenuItem.init(Unknown Source) at javax.swing.JMenuItem.<init>(Unknown Source) at javax.swing.JMenuItem.<init>(Unknown Source) at javax.swing.JMenu.<init>(Unknown Source) at com.affymetrix.igb.tiers.TierArithmetic.popupNotify(TierArithmetic.java:33) at com.affymetrix.igb.tiers.TierLabelManager.doPopup(TierLabelManager.java:585) at com.affymetrix.igb.tiers.TierLabelManager$2.mousePressed(TierLabelManager.java:170) at com.affymetrix.genoviz.widget.NeoWidget.heardMouseEvent(NeoWidget.java:1277) at com.affymetrix.genoviz.widget.NeoMap.heardMouseEvent(NeoMap.java:1539) at com.affymetrix.genoviz.widget.NeoAbstractWidget.mousePressed(NeoAbstractWidget.java:814) at com.affymetrix.genoviz.bioviews.View.heardMouseEvent(View.java:917) at com.affymetrix.genoviz.bioviews.View.mousePressed(View.java:833) at java.awt.Component.processMouseEvent(Unknown Source) at javax.swing.JComponent.processMouseEvent(Unknown Source) at java.awt.Component.processEvent(Unknown Source) at java.awt.Container.processEvent(Unknown Source) at java.awt.Component.dispatchEventImpl(Unknown Source) at java.awt.Container.dispatchEventImpl(Unknown Source) at java.awt.Component.dispatchEvent(Unknown Source) at java.awt.LightweightDispatcher.retargetMouseEvent(Unknown Source) at java.awt.LightweightDispatcher.processMouseEvent(Unknown Source) at java.awt.LightweightDispatcher.dispatchEvent(Unknown Source) at java.awt.Container.dispatchEventImpl(Unknown Source) at java.awt.Window.dispatchEventImpl(Unknown Source) at java.awt.Component.dispatchEvent(Unknown Source) at java.awt.EventQueue.dispatchEventImpl(Unknown Source) at java.awt.EventQueue.access$000(Unknown Source) at java.awt.EventQueue$1.run(Unknown Source) at java.awt.EventQueue$1.run(Unknown Source) at java.security.AccessController.doPrivileged(Native Method) at java.security.AccessControlContext$1.doIntersectionPrivilege(Unknown Source) at java.security.AccessControlContext$1.doIntersectionPrivilege(Unknown Source) at java.awt.EventQueue$2.run(Unknown Source) at java.awt.EventQueue$2.run(Unknown Source) at java.security.AccessController.doPrivileged(Native Method) at java.security.AccessControlContext$1.doIntersectionPrivilege(Unknown Source) at java.awt.EventQueue.dispatchEvent(Unknown Source) at java.awt.EventDispatchThread.pumpOneEventForFilters(Unknown Source) at java.awt.EventDispatchThread.pumpEventsForFilter(Unknown Source) at java.awt.EventDispatchThread.pumpEventsForHierarchy(Unknown Source) at java.awt.EventDispatchThread.pumpEvents(Unknown Source) at java.awt.EventDispatchThread.pumpEvents(Unknown Source) at java.awt.EventDispatchThread.run(Unknown Source) UIDefaults.getUI() failed: no ComponentUI class for: javax.swing.JMenu[,0,0,0x0,invalid,alignmentX=0.0,alignmentY=0.0,border=,flags=0,maximumSize=,minimumSize=,preferredSize=,defaultIcon=,disabledIcon=,disabledSelectedIcon=,margin=null,paintBorder=false,paintFocus=false,pressedIcon=,rolloverEnabled=false,rolloverIcon=,rolloverSelectedIcon=,selectedIcon=,text=Save Annotations] java.lang.Error at javax.swing.UIDefaults.getUIError(Unknown Source) at javax.swing.MultiUIDefaults.getUIError(Unknown Source) at javax.swing.UIDefaults.getUI(Unknown Source) at javax.swing.UIManager.getUI(Unknown Source) at javax.swing.JMenu.updateUI(Unknown Source) at javax.swing.JMenuItem.init(Unknown Source) at javax.swing.JMenuItem.<init>(Unknown Source) at javax.swing.JMenuItem.<init>(Unknown Source) at javax.swing.JMenu.<init>(Unknown Source) at com.affymetrix.igb.tiers.SeqMapViewPopup.popupNotify(SeqMapViewPopup.java:1102) at com.affymetrix.igb.tiers.TierLabelManager.doPopup(TierLabelManager.java:585) at com.affymetrix.igb.tiers.TierLabelManager$2.mousePressed(TierLabelManager.java:170) at com.affymetrix.genoviz.widget.NeoWidget.heardMouseEvent(NeoWidget.java:1277) at com.affymetrix.genoviz.widget.NeoMap.heardMouseEvent(NeoMap.java:1539) at com.affymetrix.genoviz.widget.NeoAbstractWidget.mousePressed(NeoAbstractWidget.java:814) at com.affymetrix.genoviz.bioviews.View.heardMouseEvent(View.java:917) at com.affymetrix.genoviz.bioviews.View.mousePressed(View.java:833) at java.awt.Component.processMouseEvent(Unknown Source) at javax.swing.JComponent.processMouseEvent(Unknown Source) at java.awt.Component.processEvent(Unknown Source) at java.awt.Container.processEvent(Unknown Source) at java.awt.Component.dispatchEventImpl(Unknown Source) at java.awt.Container.dispatchEventImpl(Unknown Source) at java.awt.Component.dispatchEvent(Unknown Source) at java.awt.LightweightDispatcher.retargetMouseEvent(Unknown Source) at java.awt.LightweightDispatcher.processMouseEvent(Unknown Source) at java.awt.LightweightDispatcher.dispatchEvent(Unknown Source) at java.awt.Container.dispatchEventImpl(Unknown Source) at java.awt.Window.dispatchEventImpl(Unknown Source) at java.awt.Component.dispatchEvent(Unknown Source) at java.awt.EventQueue.dispatchEventImpl(Unknown Source) at java.awt.EventQueue.access$000(Unknown Source) at java.awt.EventQueue$1.run(Unknown Source) at java.awt.EventQueue$1.run(Unknown Source) at java.security.AccessController.doPrivileged(Native Method) at java.security.AccessControlContext$1.doIntersectionPrivilege(Unknown Source) at java.security.AccessControlContext$1.doIntersectionPrivilege(Unknown Source) at java.awt.EventQueue$2.run(Unknown Source) at java.awt.EventQueue$2.run(Unknown Source) at java.security.AccessController.doPrivileged(Native Method) at java.security.AccessControlContext$1.doIntersectionPrivilege(Unknown Source) at java.awt.EventQueue.dispatchEvent(Unknown Source) at java.awt.EventDispatchThread.pumpOneEventForFilters(Unknown Source) at java.awt.EventDispatchThread.pumpEventsForFilter(Unknown Source) at java.awt.EventDispatchThread.pumpEventsForHierarchy(Unknown Source) at java.awt.EventDispatchThread.pumpEvents(Unknown Source) at java.awt.EventDispatchThread.pumpEvents(Unknown Source) at java.awt.EventDispatchThread.run(Unknown Source) UIDefaults.getUI() failed: no ComponentUI class for: javax.swing.JCheckBoxMenuItem[,0,0,0x0,invalid,alignmentX=0.0,alignmentY=0.0,border=,flags=0,maximumSize=,minimumSize=,preferredSize=,defaultIcon=,disabledIcon=,disabledSelectedIcon=,margin=null,paintBorder=false,paintFocus=false,pressedIcon=,rolloverEnabled=false,rolloverIcon=,rolloverSelectedIcon=,selectedIcon=,text=] java.lang.Error at javax.swing.UIDefaults.getUIError(Unknown Source) at javax.swing.MultiUIDefaults.getUIError(Unknown Source) at javax.swing.UIDefaults.getUI(Unknown Source) at javax.swing.UIManager.getUI(Unknown Source) at javax.swing.JMenuItem.updateUI(Unknown Source) at javax.swing.JMenuItem.init(Unknown Source) at javax.swing.JMenuItem.<init>(Unknown Source) at javax.swing.JCheckBoxMenuItem.<init>(Unknown Source) at javax.swing.JCheckBoxMenuItem.<init>(Unknown Source) at javax.swing.JCheckBoxMenuItem.<init>(Unknown Source) at com.affymetrix.igb.tiers.SeqMapViewPopup.popupNotify(SeqMapViewPopup.java:1142) at com.affymetrix.igb.tiers.TierLabelManager.doPopup(TierLabelManager.java:585) at com.affymetrix.igb.tiers.TierLabelManager$2.mousePressed(TierLabelManager.java:170) at com.affymetrix.genoviz.widget.NeoWidget.heardMouseEvent(NeoWidget.java:1277) at com.affymetrix.genoviz.widget.NeoMap.heardMouseEvent(NeoMap.java:1539) at com.affymetrix.genoviz.widget.NeoAbstractWidget.mousePressed(NeoAbstractWidget.java:814) at com.affymetrix.genoviz.bioviews.View.heardMouseEvent(View.java:917) at com.affymetrix.genoviz.bioviews.View.mousePressed(View.java:833) at java.awt.Component.processMouseEvent(Unknown Source) at javax.swing.JComponent.processMouseEvent(Unknown Source) at java.awt.Component.processEvent(Unknown Source) at java.awt.Container.processEvent(Unknown Source) at java.awt.Component.dispatchEventImpl(Unknown Source) at java.awt.Container.dispatchEventImpl(Unknown Source) at java.awt.Component.dispatchEvent(Unknown Source) at java.awt.LightweightDispatcher.retargetMouseEvent(Unknown Source) at java.awt.LightweightDispatcher.processMouseEvent(Unknown Source) at java.awt.LightweightDispatcher.dispatchEvent(Unknown Source) at java.awt.Container.dispatchEventImpl(Unknown Source) at java.awt.Window.dispatchEventImpl(Unknown Source) at java.awt.Component.dispatchEvent(Unknown Source) at java.awt.EventQueue.dispatchEventImpl(Unknown Source) at java.awt.EventQueue.access$000(Unknown Source) at java.awt.EventQueue$1.run(Unknown Source) at java.awt.EventQueue$1.run(Unknown Source) at java.security.AccessController.doPrivileged(Native Method) at java.security.AccessControlContext$1.doIntersectionPrivilege(Unknown Source) at java.security.AccessControlContext$1.doIntersectionPrivilege(Unknown Source) at java.awt.EventQueue$2.run(Unknown Source) at java.awt.EventQueue$2.run(Unknown Source) at java.security.AccessController.doPrivileged(Native Method) at java.security.AccessControlContext$1.doIntersectionPrivilege(Unknown Source) at java.awt.EventQueue.dispatchEvent(Unknown Source) at java.awt.EventDispatchThread.pumpOneEventForFilters(Unknown Source) at java.awt.EventDispatchThread.pumpEventsForFilter(Unknown Source) at java.awt.EventDispatchThread.pumpEventsForHierarchy(Unknown Source) at java.awt.EventDispatchThread.pumpEvents(Unknown Source) at java.awt.EventDispatchThread.pumpEvents(Unknown Source) at java.awt.EventDispatchThread.run(Unknown Source) |
This is a Windows error, not a Mac error. Load A_thaliana_Jun_2009 Click 'Sample BAM file' under IGB quickload >RNA-Seq in Data Sources panel Zoom in and load Rt click on Sample BAM filetrack label and everything looks fine Preferences -> Tracks -> Change FG color of BAM file. Color updates but when rt clicking on Sample BAM label again and rt click menu is half gone (attached photo) and the error below is thrown. The same error is also thrown when: - Any BG or FG color adjustment is made to any track from the 'Track List' table or from the 'Properties' sub panel. This also includes the coordinate track. - If color is activated from the 'Show Strand' sub panel - If the '+' or '-' colors are adjusted - When any BG or FG color adjustment is made to the track default list and then 'Restore to default' is clicked - Any BG or FG color adjustment is made to any track listed in the 'Data Management Table' - Any of the above adjustments made to local files (either desktop or URL) will also cause the error. There is no error thrown if: - Any size adjustment is made to any track from the 'Track List' or 'Properties' sub panels - If arrow is checked under the 'Show Strand' sub panel - Any BG or FG color adjustment made to any track listed from rt click -> change -> color DOES NOT throw an error. Error trace attached as file (it is huge) |
| Assignee | Katharine Kubiak [ kkubiak ] | Hiral Vora [ hiralv ] |
| Description |
This is a Windows error, not a Mac error. Load A_thaliana_Jun_2009 Click 'Sample BAM file' under IGB quickload >RNA-Seq in Data Sources panel Zoom in and load Rt click on Sample BAM filetrack label and everything looks fine Preferences -> Tracks -> Change FG color of BAM file. Color updates but when rt clicking on Sample BAM label again and rt click menu is half gone (attached photo) and the error below is thrown. The same error is also thrown when: - Any BG or FG color adjustment is made to any track from the 'Track List' table or from the 'Properties' sub panel. This also includes the coordinate track. - If color is activated from the 'Show Strand' sub panel - If the '+' or '-' colors are adjusted - When any BG or FG color adjustment is made to the track default list and then 'Restore to default' is clicked - Any BG or FG color adjustment is made to any track listed in the 'Data Management Table' - Any of the above adjustments made to local files (either desktop or URL) will also cause the error. There is no error thrown if: - Any size adjustment is made to any track from the 'Track List' or 'Properties' sub panels - If arrow is checked under the 'Show Strand' sub panel - Any BG or FG color adjustment made to any track listed from rt click -> change -> color DOES NOT throw an error. Error trace attached as file (it is huge) |
This is a Windows error, not a Mac error. Load A_thaliana_Jun_2009 Click 'Sample BAM file' under IGB quickload >RNA-Seq in Data Sources panel Zoom in and load Rt click on Sample BAM filetrack label and everything looks fine Preferences -> Tracks -> Change FG color of BAM file. Color updates but when rt clicking on Sample BAM label again and rt click menu is half gone (attached photo) and the error below is thrown. The same error is also thrown when: - Any BG or FG color adjustment is made to any track from the 'Track List' table or from the 'Properties' sub panel. This also includes the coordinate track. - If color is activated from the 'Show Strand' sub panel - If the '+' or '-' colors are adjusted - When any BG or FG color adjustment is made to the track default list and then 'Restore to default' is clicked - Any BG or FG color adjustment is made to any track listed in the 'Data Management Table' - Any color adjustment is made to 'Coordinates' colors, 'Residue Colors', 'ORF Analyzer' Colors, or 'Edge Match' color - Any of the above adjustments made to local files (either desktop or URL) will also cause the error. There is no error thrown if: - Any size adjustment is made to any track from the 'Track List' or 'Properties' sub panels - If arrow is checked under the 'Show Strand' sub panel - Any BG or FG color adjustment made to any track listed from rt click -> change -> color DOES NOT throw an error. Error trace attached as file (it is huge) |
| Assignee | Hiral Vora [ hiralv ] | Nick Ren [ imnick ] |
| Assignee | Nick Ren [ imnick ] | Katharine Kubiak [ kkubiak ] |
| Assignee | Katharine Kubiak [ kkubiak ] | Alyssa Gulledge [ alyssa ] |
| Status | Open [ 1 ] | Resolved [ 5 ] |
| Assignee | Alyssa Gulledge [ alyssa ] | |
| Resolution | Fixed [ 1 ] |
| Status | Resolved [ 5 ] | Closed [ 6 ] |
| Resolution | Fixed [ 1 ] | |
| Status | Closed [ 6 ] | Reopened [ 4 ] |
| Assignee | Fuquan Wang [ fwang4 ] |
| Comment | [ Passed on 7.0.0 (11997) Mac ] |
| Status | Reopened [ 4 ] | Resolved [ 5 ] |
| Assignee | Fuquan Wang [ fwang4 ] | |
| Resolution | Fixed [ 1 ] |
| Resolution | Fixed [ 1 ] | |
| Status | Resolved [ 5 ] | Reopened [ 4 ] |
| Status | Reopened [ 4 ] | Closed [ 6 ] |
| Resolution | Fixed [ 1 ] |
This seems to be true also for bed files on windows.
On Mac: there seems to be no problem.