Details
-
Type:
Bug
-
Status: Closed (View Workflow)
-
Priority:
Minor
-
Resolution: Fixed
-
Labels:None
Description
H sapiens
refseq
gsnap4
cpg Islands (http://bioviz.org/filerepo/CpG%20Islands.bed.gz)
java.lang.NullPointerException
at com.affymetrix.genometryImpl.symloader.SymLoaderTabix.getStartEnd(Sym
LoaderTabix.java:159)
at com.affymetrix.genometryImpl.symloader.SymLoaderTabix.getRegion(SymLo
aderTabix.java:143)
at com.affymetrix.genometryImpl.quickload.QuickLoadSymLoader.getRegion(Q
uickLoadSymLoader.java:257)
at com.affymetrix.genometryImpl.quickload.QuickLoadSymLoader.loadAndAddS
ymmetries(QuickLoadSymLoader.java:134)
at com.affymetrix.genometryImpl.quickload.QuickLoadSymLoader.loadSymmetr
iesThread(QuickLoadSymLoader.java:108)
at com.affymetrix.genometryImpl.quickload.QuickLoadSymLoader.loadFeature
s(QuickLoadSymLoader.java:94)
at com.affymetrix.genometryImpl.util.LocalFilesServerType.loadFeatures(L
ocalFilesServerType.java:99)
at com.affymetrix.igb.view.load.GeneralLoadUtils.loadFeaturesForSym(Gene
ralLoadUtils.java:816)
at com.affymetrix.igb.shared.IndexedSemanticZoomGlyphFactory$IndexedSema
nticZoomGlyph.getDetailGlyph(IndexedSemanticZoomGlyphFactory.java:102)
at com.affymetrix.igb.shared.IndexedSemanticZoomGlyphFactory$IndexedSema
nticZoomGlyph.getGlyph(IndexedSemanticZoomGlyphFactory.java:151)
at com.affymetrix.igb.shared.SemanticZoomGlyphFactory$SemanticZoomGlyph.
rangeChanged(SemanticZoomGlyphFactory.java:65)
at com.affymetrix.igb.view.SeqMapView$2.rangeChanged(SeqMapView.java:288
)
at com.affymetrix.genoviz.widget.NeoMap.viewBoxChanged(NeoMap.java:1576)
at com.affymetrix.genoviz.bioviews.View.draw(View.java:396)
at com.affymetrix.genoviz.bioviews.View.componentPainted(View.java:869)
at com.affymetrix.genoviz.awt.NeoCanvas.postPaintEvent(NeoCanvas.java:72
)
at com.affymetrix.genoviz.awt.NeoCanvas.paintComponent(NeoCanvas.java:47
)
at javax.swing.JComponent.paint(Unknown Source)
at javax.swing.JComponent.paintToOffscreen(Unknown Source)
at javax.swing.RepaintManager$PaintManager.paintDoubleBuffered(Unknown S
ource)
at javax.swing.RepaintManager$PaintManager.paint(Unknown Source)
at javax.swing.RepaintManager.paint(Unknown Source)
at javax.swing.JComponent._paintImmediately(Unknown Source)
at javax.swing.JComponent.paintImmediately(Unknown Source)
at javax.swing.RepaintManager.paintDirtyRegions(Unknown Source)
at javax.swing.RepaintManager.paintDirtyRegions(Unknown Source)
at javax.swing.RepaintManager.prePaintDirtyRegions(Unknown Source)
at javax.swing.RepaintManager.access$700(Unknown Source)
at javax.swing.RepaintManager$ProcessingRunnable.run(Unknown Source)
at java.awt.event.InvocationEvent.dispatch(Unknown Source)
at java.awt.EventQueue.dispatchEventImpl(Unknown Source)
at java.awt.EventQueue.access$000(Unknown Source)
at java.awt.EventQueue$3.run(Unknown Source)
at java.awt.EventQueue$3.run(Unknown Source)
at java.security.AccessController.doPrivileged(Native Method)
at java.security.ProtectionDomain$1.doIntersectionPrivilege(Unknown Sour
ce)
at java.awt.EventQueue.dispatchEvent(Unknown Source)
at java.awt.EventDispatchThread.pumpOneEventForFilters(Unknown Source)
at java.awt.EventDispatchThread.pumpEventsForFilter(Unknown Source)
at java.awt.EventDispatchThread.pumpEventsForHierarchy(Unknown Source)
at java.awt.EventDispatchThread.pumpEvents(Unknown Source)
at java.awt.EventDispatchThread.pumpEvents(Unknown Source)
at java.awt.EventDispatchThread.run(Unknown Source)
Attachments
Issue Links
- relates to
-
BUG-622 File format issues
-
- Closed
-
Activity
| Assignee | Lance Frohman [ lfrohman ] | Hiral Vora [ hiralv ] |
| Description |
H sapiens refseq gsnap4 cpg Islands java.lang.NullPointerException at com.affymetrix.genometryImpl.symloader.SymLoaderTabix.getStartEnd(Sym LoaderTabix.java:159) at com.affymetrix.genometryImpl.symloader.SymLoaderTabix.getRegion(SymLo aderTabix.java:143) at com.affymetrix.genometryImpl.quickload.QuickLoadSymLoader.getRegion(Q uickLoadSymLoader.java:257) at com.affymetrix.genometryImpl.quickload.QuickLoadSymLoader.loadAndAddS ymmetries(QuickLoadSymLoader.java:134) at com.affymetrix.genometryImpl.quickload.QuickLoadSymLoader.loadSymmetr iesThread(QuickLoadSymLoader.java:108) at com.affymetrix.genometryImpl.quickload.QuickLoadSymLoader.loadFeature s(QuickLoadSymLoader.java:94) at com.affymetrix.genometryImpl.util.LocalFilesServerType.loadFeatures(L ocalFilesServerType.java:99) at com.affymetrix.igb.view.load.GeneralLoadUtils.loadFeaturesForSym(Gene ralLoadUtils.java:816) at com.affymetrix.igb.shared.IndexedSemanticZoomGlyphFactory$IndexedSema nticZoomGlyph.getDetailGlyph(IndexedSemanticZoomGlyphFactory.java:102) at com.affymetrix.igb.shared.IndexedSemanticZoomGlyphFactory$IndexedSema nticZoomGlyph.getGlyph(IndexedSemanticZoomGlyphFactory.java:151) at com.affymetrix.igb.shared.SemanticZoomGlyphFactory$SemanticZoomGlyph. rangeChanged(SemanticZoomGlyphFactory.java:65) at com.affymetrix.igb.view.SeqMapView$2.rangeChanged(SeqMapView.java:288 ) at com.affymetrix.genoviz.widget.NeoMap.viewBoxChanged(NeoMap.java:1576) at com.affymetrix.genoviz.bioviews.View.draw(View.java:396) at com.affymetrix.genoviz.bioviews.View.componentPainted(View.java:869) at com.affymetrix.genoviz.awt.NeoCanvas.postPaintEvent(NeoCanvas.java:72 ) at com.affymetrix.genoviz.awt.NeoCanvas.paintComponent(NeoCanvas.java:47 ) at javax.swing.JComponent.paint(Unknown Source) at javax.swing.JComponent.paintToOffscreen(Unknown Source) at javax.swing.RepaintManager$PaintManager.paintDoubleBuffered(Unknown S ource) at javax.swing.RepaintManager$PaintManager.paint(Unknown Source) at javax.swing.RepaintManager.paint(Unknown Source) at javax.swing.JComponent._paintImmediately(Unknown Source) at javax.swing.JComponent.paintImmediately(Unknown Source) at javax.swing.RepaintManager.paintDirtyRegions(Unknown Source) at javax.swing.RepaintManager.paintDirtyRegions(Unknown Source) at javax.swing.RepaintManager.prePaintDirtyRegions(Unknown Source) at javax.swing.RepaintManager.access$700(Unknown Source) at javax.swing.RepaintManager$ProcessingRunnable.run(Unknown Source) at java.awt.event.InvocationEvent.dispatch(Unknown Source) at java.awt.EventQueue.dispatchEventImpl(Unknown Source) at java.awt.EventQueue.access$000(Unknown Source) at java.awt.EventQueue$3.run(Unknown Source) at java.awt.EventQueue$3.run(Unknown Source) at java.security.AccessController.doPrivileged(Native Method) at java.security.ProtectionDomain$1.doIntersectionPrivilege(Unknown Sour ce) at java.awt.EventQueue.dispatchEvent(Unknown Source) at java.awt.EventDispatchThread.pumpOneEventForFilters(Unknown Source) at java.awt.EventDispatchThread.pumpEventsForFilter(Unknown Source) at java.awt.EventDispatchThread.pumpEventsForHierarchy(Unknown Source) at java.awt.EventDispatchThread.pumpEvents(Unknown Source) at java.awt.EventDispatchThread.pumpEvents(Unknown Source) at java.awt.EventDispatchThread.run(Unknown Source) |
H sapiens refseq gsnap4 cpg Islands (http://bioviz.org/filerepo/CpG%20Islands.bed.gz) java.lang.NullPointerException at com.affymetrix.genometryImpl.symloader.SymLoaderTabix.getStartEnd(Sym LoaderTabix.java:159) at com.affymetrix.genometryImpl.symloader.SymLoaderTabix.getRegion(SymLo aderTabix.java:143) at com.affymetrix.genometryImpl.quickload.QuickLoadSymLoader.getRegion(Q uickLoadSymLoader.java:257) at com.affymetrix.genometryImpl.quickload.QuickLoadSymLoader.loadAndAddS ymmetries(QuickLoadSymLoader.java:134) at com.affymetrix.genometryImpl.quickload.QuickLoadSymLoader.loadSymmetr iesThread(QuickLoadSymLoader.java:108) at com.affymetrix.genometryImpl.quickload.QuickLoadSymLoader.loadFeature s(QuickLoadSymLoader.java:94) at com.affymetrix.genometryImpl.util.LocalFilesServerType.loadFeatures(L ocalFilesServerType.java:99) at com.affymetrix.igb.view.load.GeneralLoadUtils.loadFeaturesForSym(Gene ralLoadUtils.java:816) at com.affymetrix.igb.shared.IndexedSemanticZoomGlyphFactory$IndexedSema nticZoomGlyph.getDetailGlyph(IndexedSemanticZoomGlyphFactory.java:102) at com.affymetrix.igb.shared.IndexedSemanticZoomGlyphFactory$IndexedSema nticZoomGlyph.getGlyph(IndexedSemanticZoomGlyphFactory.java:151) at com.affymetrix.igb.shared.SemanticZoomGlyphFactory$SemanticZoomGlyph. rangeChanged(SemanticZoomGlyphFactory.java:65) at com.affymetrix.igb.view.SeqMapView$2.rangeChanged(SeqMapView.java:288 ) at com.affymetrix.genoviz.widget.NeoMap.viewBoxChanged(NeoMap.java:1576) at com.affymetrix.genoviz.bioviews.View.draw(View.java:396) at com.affymetrix.genoviz.bioviews.View.componentPainted(View.java:869) at com.affymetrix.genoviz.awt.NeoCanvas.postPaintEvent(NeoCanvas.java:72 ) at com.affymetrix.genoviz.awt.NeoCanvas.paintComponent(NeoCanvas.java:47 ) at javax.swing.JComponent.paint(Unknown Source) at javax.swing.JComponent.paintToOffscreen(Unknown Source) at javax.swing.RepaintManager$PaintManager.paintDoubleBuffered(Unknown S ource) at javax.swing.RepaintManager$PaintManager.paint(Unknown Source) at javax.swing.RepaintManager.paint(Unknown Source) at javax.swing.JComponent._paintImmediately(Unknown Source) at javax.swing.JComponent.paintImmediately(Unknown Source) at javax.swing.RepaintManager.paintDirtyRegions(Unknown Source) at javax.swing.RepaintManager.paintDirtyRegions(Unknown Source) at javax.swing.RepaintManager.prePaintDirtyRegions(Unknown Source) at javax.swing.RepaintManager.access$700(Unknown Source) at javax.swing.RepaintManager$ProcessingRunnable.run(Unknown Source) at java.awt.event.InvocationEvent.dispatch(Unknown Source) at java.awt.EventQueue.dispatchEventImpl(Unknown Source) at java.awt.EventQueue.access$000(Unknown Source) at java.awt.EventQueue$3.run(Unknown Source) at java.awt.EventQueue$3.run(Unknown Source) at java.security.AccessController.doPrivileged(Native Method) at java.security.ProtectionDomain$1.doIntersectionPrivilege(Unknown Sour ce) 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 | Hiral Vora [ hiralv ] |
| Status | Open [ 1 ] | Closed [ 6 ] |
| Resolution | Fixed [ 1 ] |
| Resolution | Fixed [ 1 ] | |
| Status | Closed [ 6 ] | Reopened [ 4 ] |
| Status | Reopened [ 4 ] | Closed [ 6 ] |
| Resolution | Fixed [ 1 ] |