Jabref: Uncaught exception occured in Thread [JavaFX Application Thread,5,main]

Created on 7 Feb 2019 · 13Comments · Source: JabRef/jabref

JabRef 5.0-dev--snapshot--2019-02-04--master--a0c2e04ea
Linux 4.15.0-45-generic amd64
Java 1.8.0_201

JabRef version JabRef 5.0-dev--snapshot--2019-02-04--master--a0c2e04ea on Ubuntu 18.04, maybe related to https://github.com/JabRef/jabref/issues/3431 or https://github.com/JabRef/jabref/issues/4567

[x] I have tested the latest development version from http://builds.jabref.org/master/ and the problem persists

Steps to reproduce the behavior:

java -jar -Djavafx.embed.singleThread=true JabRef--master--latest.jar
Open 4633.bib.txt
Type "K" in the Searchfield (wait till suggestions)
add "a" in the Searchfield (wait till suggestions)
Error occurs
But you can ignore the error and just continue working

Terminal Output

```bash
14:06:20.128 [JavaFX Application Thread] INFO org.jabref.logic.importer.OpenDatabase - Opening: /home/jkalliau/Desktop/4633.bib
14:06:20.933 [JavaFX Application Thread] ERROR org.jabref.logic.citationstyle.CitationStyle - Can only load style files: Preview
14:06:46.201 [JavaFX Application Thread] ERROR org.jabref.FallbackExceptionHandler - Uncaught exception occurred in Thread[JavaFX Application Thread,5,main]
java.lang.NullPointerException: null
at java.awt.EventQueue$3$1.run(EventQueue.java:714) ~[?:1.8.0_201]
at com.sun.javafx.application.PlatformImpl.lambda$null$397(PlatformImpl.java:295) ~[jfxrt.jar:?]
at java.security.AccessController.doPrivileged(Native Method) ~[?:1.8.0_201]
at com.sun.javafx.application.PlatformImpl.lambda$runLater$398(PlatformImpl.java:294) ~[jfxrt.jar:?]
at com.sun.glass.ui.InvokeLaterDispatcher$Future.run(InvokeLaterDispatcher.java:95) ~[jfxrt.jar:?]
at com.sun.glass.ui.gtk.GtkApplication._runLoop(Native Method) ~[jfxrt.jar:?]
at com.sun.glass.ui.gtk.GtkApplication.lambda$null$203(GtkApplication.java:139) ~[jfxrt.jar:?]
at java.lang.Thread.run(Thread.java:748) [?:1.8.0_201]

```

Uncaught exception occured in Thread [JavaFX Application Thread,5,main]

java.lang.NullPointerException at java.awt.EventQueue$3$1.run(EventQueue.java:714) at com.sun.javafx.application.PlatformImpl.lambda$null$397(PlatformImpl.java:295) at java.security.AccessController.doPrivileged(Native Method) at com.sun.javafx.application.PlatformImpl.lambda$runLater$398(PlatformImpl.java:294) at com.sun.glass.ui.InvokeLaterDispatcher$Future.run(InvokeLaterDispatcher.java:95) at com.sun.glass.ui.gtk.GtkApplication._runLoop(Native Method) at com.sun.glass.ui.gtk.GtkApplication.lambda$null$203(GtkApplication.java:139) at java.lang.Thread.run(Thread.java:748)

Log Protocoll

Can only load style files: Preview Can only load style files: Preview Uncaught exception occurred in Thread[JavaFX Application Thread,5,main]

search stale waiting-for-customer-feedback bug 🐛 ui

Source

JoKalliauer

👍1

Most helpful comment

Just for your information, you no longer need the -Djavafx.embed.singleThread=true switch as we now more or less completely removed the old swing stuff.

There have been just some changes merged which could make this obsolete. But please wait until #4840 is resolved

Siedlerchr on 3 Apr 2019

🎉1 👍1

All 13 comments

This could be related that the SearchWorker is still implemented as SwingWorker and not properly as JavaFX Task. Related of #3861

Siedlerchr on 18 Feb 2019

Refers to #4694

Siedlerchr on 16 Mar 2019

This should be fixed in the latest development version. Could you please check the build from http://builds.jabref.org/master/. Thanks! Please remember to make a backup of your library before trying-out this version.

tobiasdiez on 2 Apr 2019

👍1

I could reproduce a bug (but not with that easy)
I type several letters (and only sometimes it occurs)

 JabRef 5.0-dev--snapshot--2019-04-02--master--47772fd8c
 Linux 4.15.0-47-generic amd64 
 Java 1.8.0_201

[x] I have tested the latest development version from http://builds.jabref.org/master/ and the problem persists

Steps to reproduce the behavior:

java -jar -Djavafx.embed.singleThread=true JabRef--master--latest.jar
Open a bib-file
Type several time one letters in the Searchfield (wait everytime till suggestions)
if it does not occur, restart JabRef and start again do Point 1-3.
Error occurs
But you can ignore the error and just continue working

Terminal Output

```bash
jkalliau@jkalliau-Z87M-D3H:~/prgm/JabRef$ java -jar -Djavafx.embed.singleThread=true JabRef--master--latest.jar %U
Ein unbekanntes Format importieren: %U
Fehler beim Öffnen der Datei '%U': Kein passendes Importer gefunden.
10:08:14.199 [JavaFX Application Thread] INFO org.jabref.logic.importer.OpenDatabase - Opening: /home/jkalliau/ownCloud/PhDJK/LaTeX/Style/LiteratureJK.bib
10:08:15.061 [JavaFX Application Thread] ERROR org.jabref.logic.citationstyle.CitationStyle - Can only load style files: Preview
10:08:22.775 [JavaFX Application Thread] ERROR org.jabref.FallbackExceptionHandler - Uncaught exception occurred in Thread[JavaFX Application Thread,5,main]
java.lang.NullPointerException: null
at java.awt.EventQueue$3$1.run(EventQueue.java:714) ~[?:1.8.0_201]
at com.sun.javafx.application.PlatformImpl.lambda$null$397(PlatformImpl.java:295) ~[jfxrt.jar:?]
at java.security.AccessController.doPrivileged(Native Method) ~[?:1.8.0_201]
at com.sun.javafx.application.PlatformImpl.lambda$runLater$398(PlatformImpl.java:294) ~[jfxrt.jar:?]
at com.sun.glass.ui.InvokeLaterDispatcher$Future.run(InvokeLaterDispatcher.java:95) ~[jfxrt.jar:?]
at com.sun.glass.ui.gtk.GtkApplication._runLoop(Native Method) ~[jfxrt.jar:?]
at com.sun.glass.ui.gtk.GtkApplication.lambda$null$203(GtkApplication.java:139) ~[jfxrt.jar:?]
at java.lang.Thread.run(Thread.java:748) [?:1.8.0_201]

```

Log Protocoll

Can only load style files: Preview Can only load style files: Preview Uncaught exception occurred in Thread[JavaFX Application Thread,5,main]

JoKalliauer on 3 Apr 2019

Just for your information, you no longer need the -Djavafx.embed.singleThread=true switch as we now more or less completely removed the old swing stuff.

There have been just some changes merged which could make this obsolete. But please wait until #4840 is resolved

Siedlerchr on 3 Apr 2019

🎉1 👍1

JabRef 5.1--2020-06-25--d364ffb
Mac OS X 10.15.5 x86_64
Java 14.0.1

I have just got this error while trying to paste a bib entry into the bib source field. The first time the error box came these were the details:

java.lang.IndexOutOfBoundsException: [ fromIndex: 2, toIndex: 3, size: 1 ] at [email protected]/com.sun.javafx.scene.control.ReadOnlyUnbackedObservableList.subList(Unknown Source) at [email protected]/javafx.collections.ListChangeListener$Change.getAddedSubList(Unknown Source) at [email protected]/com.sun.javafx.scene.control.behavior.TableViewBehaviorBase.lambda$new$1(Unknown Source) at [email protected]/com.sun.javafx.collections.ListListenerHelper$Generic.fireValueChangedEvent(Unknown Source) at [email protected]/com.sun.javafx.collections.ListListenerHelper.fireValueChangedEvent(Unknown Source) at [email protected]/javafx.collections.ObservableListBase.fireChange(Unknown Source) at [email protected]/com.sun.javafx.scene.control.ReadOnlyUnbackedObservableList.callObservers(Unknown Source) at [email protected]/javafx.scene.control.TableView$TableViewArrayListSelectionModel.fireCustomSelectedCellsListChangeEvent(Unknown Source) at [email protected]/com.sun.javafx.collections.ListListenerHelper$SingleChange.fireValueChangedEvent(Unknown Source) at [email protected]/com.sun.javafx.collections.ListListenerHelper.fireValueChangedEvent(Unknown Source) at [email protected]/javafx.collections.ObservableListBase.fireChange(Unknown Source) at [email protected]/javafx.collections.ListChangeBuilder.commit(Unknown Source) at [email protected]/javafx.collections.ListChangeBuilder.endChange(Unknown Source) at [email protected]/javafx.collections.ObservableListBase.endChange(Unknown Source) at [email protected]/javafx.collections.transformation.SortedList.sourceChanged(Unknown Source) at [email protected]/javafx.collections.transformation.TransformationList.lambda$getListener$0(Unknown Source) at [email protected]/javafx.collections.WeakListChangeListener.onChanged(Unknown Source) at [email protected]/com.sun.javafx.collections.ListListenerHelper$SingleChange.fireValueChangedEvent(Unknown Source) at [email protected]/com.sun.javafx.collections.ListListenerHelper.fireValueChangedEvent(Unknown Source) at [email protected]/javafx.collections.ObservableListBase.fireChange(Unknown Source) at [email protected]/javafx.collections.ListChangeBuilder.commit(Unknown Source) at [email protected]/javafx.collections.ListChangeBuilder.endChange(Unknown Source) at [email protected]/javafx.collections.ObservableListBase.endChange(Unknown Source) at [email protected]/javafx.collections.ModifiableObservableListBase.add(Unknown Source) at java.base/java.util.AbstractList.add(Unknown Source) at [email protected]/com.sun.javafx.scene.control.SelectedCellsMap.add(Unknown Source) at [email protected]/javafx.scene.control.TableView$TableViewArrayListSelectionModel.select(Unknown Source) at [email protected]/javafx.scene.control.TableView$TableViewArrayListSelectionModel.select(Unknown Source) at [email protected]/javafx.scene.control.TableView$TableViewArrayListSelectionModel.select(Unknown Source) at org.jabref/org.jabref.gui.maintable.MainTable.lambda$clearAndSelect$10(Unknown Source) at java.base/java.util.Optional.ifPresent(Unknown Source) at org.jabref/org.jabref.gui.maintable.MainTable.clearAndSelect(Unknown Source) at org.jabref/org.jabref.gui.maintable.MainTable.lambda$listen$9(Unknown Source) at [email protected]/com.sun.javafx.application.PlatformImpl.lambda$runLater$10(Unknown Source) at java.base/java.security.AccessController.doPrivileged(Unknown Source) at [email protected]/com.sun.javafx.application.PlatformImpl.lambda$runLater$11(Unknown Source) at [email protected]/com.sun.glass.ui.InvokeLaterDispatcher$Future.run(Unknown Source)

After I closed the error box it appeared again, with these details:

java.lang.NullPointerException at java.base/java.util.stream.ReferencePipeline$3$1.accept(Unknown Source) at java.base/java.util.Iterator.forEachRemaining(Unknown Source) at java.base/java.util.Spliterators$IteratorSpliterator.forEachRemaining(Unknown Source) at java.base/java.util.stream.AbstractPipeline.copyInto(Unknown Source) at java.base/java.util.stream.AbstractPipeline.wrapAndCopyInto(Unknown Source) at java.base/java.util.stream.ReduceOps$ReduceOp.evaluateSequential(Unknown Source) at java.base/java.util.stream.AbstractPipeline.evaluate(Unknown Source) at java.base/java.util.stream.ReferencePipeline.collect(Unknown Source) at org.jabref/org.jabref.gui.maintable.MainTable.getSelectedEntries(Unknown Source) at org.jabref/org.jabref.gui.BasePanel.lambda$createMainTable$2(Unknown Source) at [email protected]/com.sun.javafx.collections.ListListenerHelper$Generic.fireValueChangedEvent(Unknown Source) at [email protected]/com.sun.javafx.collections.ListListenerHelper.fireValueChangedEvent(Unknown Source) at [email protected]/javafx.collections.ObservableListBase.fireChange(Unknown Source) at [email protected]/javafx.collections.ListChangeBuilder.commit(Unknown Source) at [email protected]/javafx.collections.ListChangeBuilder.endChange(Unknown Source) at [email protected]/javafx.collections.ObservableListBase.endChange(Unknown Source) at [email protected]/com.sun.javafx.scene.control.SelectedItemsReadOnlyObservableList.lambda$new$1(Unknown Source) at [email protected]/com.sun.javafx.collections.ListListenerHelper$Generic.fireValueChangedEvent(Unknown Source) at [email protected]/com.sun.javafx.collections.ListListenerHelper.fireValueChangedEvent(Unknown Source) at [email protected]/javafx.collections.ObservableListBase.fireChange(Unknown Source) at [email protected]/javafx.collections.ListChangeBuilder.commit(Unknown Source) at [email protected]/javafx.collections.ListChangeBuilder.endChange(Unknown Source) at [email protected]/javafx.collections.ObservableListBase.endChange(Unknown Source) at [email protected]/com.sun.javafx.scene.control.ReadOnlyUnbackedObservableList._endChange(Unknown Source) at [email protected]/javafx.scene.control.MultipleSelectionModelBase$SelectedIndicesList._endChange(Unknown Source) at [email protected]/javafx.scene.control.ControlUtils.updateSelectedIndices(Unknown Source) at [email protected]/javafx.scene.control.TableView$TableViewArrayListSelectionModel.fireCustomSelectedCellsListChangeEvent(Unknown Source) at [email protected]/javafx.scene.control.TableView$TableViewArrayListSelectionModel.clearSelection(Unknown Source) at [email protected]/javafx.scene.control.TableView$TableViewArrayListSelectionModel.updateDefaultSelection(Unknown Source) at [email protected]/javafx.scene.control.TableView$TableViewArrayListSelectionModel.lambda$new$2(Unknown Source) at [email protected]/javafx.collections.WeakListChangeListener.onChanged(Unknown Source) at [email protected]/com.sun.javafx.collections.ListListenerHelper$Generic.fireValueChangedEvent(Unknown Source) at [email protected]/com.sun.javafx.collections.ListListenerHelper.fireValueChangedEvent(Unknown Source) at [email protected]/javafx.collections.ObservableListBase.fireChange(Unknown Source) at [email protected]/javafx.collections.ListChangeBuilder.commit(Unknown Source) at [email protected]/javafx.collections.ListChangeBuilder.endChange(Unknown Source) at [email protected]/javafx.collections.ObservableListBase.endChange(Unknown Source) at [email protected]/javafx.collections.transformation.SortedList.sourceChanged(Unknown Source) at [email protected]/javafx.collections.transformation.TransformationList.lambda$getListener$0(Unknown Source) at [email protected]/javafx.collections.WeakListChangeListener.onChanged(Unknown Source) at [email protected]/com.sun.javafx.collections.ListListenerHelper$Generic.fireValueChangedEvent(Unknown Source) at [email protected]/com.sun.javafx.collections.ListListenerHelper.fireValueChangedEvent(Unknown Source) at [email protected]/javafx.collections.ObservableListBase.fireChange(Unknown Source) at [email protected]/javafx.collections.transformation.FilteredList.refilter(Unknown Source) at [email protected]/javafx.collections.transformation.FilteredList$1.invalidated(Unknown Source) at [email protected]/javafx.beans.property.ObjectPropertyBase.markInvalid(Unknown Source) at [email protected]/javafx.beans.property.ObjectPropertyBase$Listener.invalidated(Unknown Source) at [email protected]/com.sun.javafx.binding.ExpressionHelper$SingleInvalidation.fireValueChangedEvent(Unknown Source) at [email protected]/com.sun.javafx.binding.ExpressionHelper.fireValueChangedEvent(Unknown Source) at [email protected]/javafx.beans.binding.ObjectBinding.invalidate(Unknown Source) at [email protected]/com.sun.javafx.binding.BindingHelperObserver.invalidated(Unknown Source) at [email protected]/com.sun.javafx.binding.ExpressionHelper$Generic.fireValueChangedEvent(Unknown Source) at [email protected]/com.sun.javafx.binding.ExpressionHelper.fireValueChangedEvent(Unknown Source) at [email protected]/javafx.beans.property.ObjectPropertyBase.fireValueChangedEvent(Unknown Source) at [email protected]/javafx.beans.property.ObjectPropertyBase.markInvalid(Unknown Source) at [email protected]/javafx.beans.property.ObjectPropertyBase.set(Unknown Source) at [email protected]/javafx.beans.property.ObjectProperty.setValue(Unknown Source) at org.jabref/org.jabref.gui.StateManager.setSearchQuery(Unknown Source) at org.jabref/org.jabref.gui.search.GlobalSearchBar.performSearch(Unknown Source) at [email protected]/org.reactfx.util.FxTimer.lambda$restart$0(Unknown Source) at [email protected]/com.sun.scenario.animation.shared.TimelineClipCore.visitKeyFrame(Unknown Source) at [email protected]/com.sun.scenario.animation.shared.TimelineClipCore.playTo(Unknown Source) at [email protected]/javafx.animation.Timeline.doPlayTo(Unknown Source) at [email protected]/javafx.animation.AnimationAccessorImpl.playTo(Unknown Source) at [email protected]/com.sun.scenario.animation.shared.SingleLoopClipEnvelope.timePulse(Unknown Source) at [email protected]/javafx.animation.Animation.doTimePulse(Unknown Source) at [email protected]/javafx.animation.Animation$1.lambda$timePulse$0(Unknown Source) at java.base/java.security.AccessController.doPrivileged(Unknown Source) at [email protected]/javafx.animation.Animation$1.timePulse(Unknown Source) at [email protected]/com.sun.scenario.animation.AbstractMasterTimer.timePulseImpl(Unknown Source) at [email protected]/com.sun.scenario.animation.AbstractMasterTimer$MainLoop.run(Unknown Source) at [email protected]/com.sun.javafx.tk.quantum.QuantumToolkit.pulse(Unknown Source) at [email protected]/com.sun.javafx.tk.quantum.QuantumToolkit.pulse(Unknown Source) at [email protected]/com.sun.javafx.tk.quantum.QuantumToolkit.pulseFromQueue(Unknown Source) at [email protected]/com.sun.javafx.tk.quantum.QuantumToolkit.lambda$runToolkit$11(Unknown Source) at [email protected]/com.sun.glass.ui.InvokeLaterDispatcher$Future.run(Unknown Source)

krantisaran on 1 Jul 2020

I had the same problem,

JabRef 5.1--2020-07-01--a336842
Mac OS X 10.14.5 x86_64 
Java 14.0.1

java.lang.RuntimeException: java.lang.reflect.InvocationTargetException
    at [email protected]/javafx.fxml.FXMLLoader$MethodHandler.invoke(Unknown Source)
    at [email protected]/javafx.fxml.FXMLLoader$ControllerMethodEventHandler.handle(Unknown Source)
    at [email protected]/com.sun.javafx.event.CompositeEventHandler.dispatchBubblingEvent(Unknown Source)
    at [email protected]/com.sun.javafx.event.EventHandlerManager.dispatchBubblingEvent(Unknown Source)
    at [email protected]/com.sun.javafx.event.EventHandlerManager.dispatchBubblingEvent(Unknown Source)
    at [email protected]/com.sun.javafx.event.CompositeEventDispatcher.dispatchBubblingEvent(Unknown Source)
    at [email protected]/com.sun.javafx.event.BasicEventDispatcher.dispatchEvent(Unknown Source)
    at [email protected]/com.sun.javafx.event.EventDispatchChainImpl.dispatchEvent(Unknown Source)
    at [email protected]/com.sun.javafx.event.BasicEventDispatcher.dispatchEvent(Unknown Source)
    at [email protected]/com.sun.javafx.event.EventDispatchChainImpl.dispatchEvent(Unknown Source)
    at [email protected]/com.sun.javafx.event.BasicEventDispatcher.dispatchEvent(Unknown Source)
    at [email protected]/com.sun.javafx.event.EventDispatchChainImpl.dispatchEvent(Unknown Source)
    at [email protected]/com.sun.javafx.event.EventUtil.fireEventImpl(Unknown Source)
    at [email protected]/com.sun.javafx.event.EventUtil.fireEvent(Unknown Source)
    at [email protected]/javafx.event.Event.fireEvent(Unknown Source)
    at [email protected]/javafx.scene.Node.fireEvent(Unknown Source)
    at [email protected]/javafx.scene.control.Button.fire(Unknown Source)
    at [email protected]/com.sun.javafx.scene.control.behavior.ButtonBehavior.mouseReleased(Unknown Source)
    at [email protected]/com.sun.javafx.scene.control.inputmap.InputMap.handle(Unknown Source)
    at [email protected]/com.sun.javafx.event.CompositeEventHandler$NormalEventHandlerRecord.handleBubblingEvent(Unknown Source)
    at [email protected]/com.sun.javafx.event.CompositeEventHandler.dispatchBubblingEvent(Unknown Source)
    at [email protected]/com.sun.javafx.event.EventHandlerManager.dispatchBubblingEvent(Unknown Source)
    at [email protected]/com.sun.javafx.event.EventHandlerManager.dispatchBubblingEvent(Unknown Source)
    at [email protected]/com.sun.javafx.event.CompositeEventDispatcher.dispatchBubblingEvent(Unknown Source)
    at [email protected]/com.sun.javafx.event.BasicEventDispatcher.dispatchEvent(Unknown Source)
    at [email protected]/com.sun.javafx.event.EventDispatchChainImpl.dispatchEvent(Unknown Source)
    at [email protected]/com.sun.javafx.event.BasicEventDispatcher.dispatchEvent(Unknown Source)
    at [email protected]/com.sun.javafx.event.EventDispatchChainImpl.dispatchEvent(Unknown Source)
    at [email protected]/com.sun.javafx.event.BasicEventDispatcher.dispatchEvent(Unknown Source)
    at [email protected]/com.sun.javafx.event.EventDispatchChainImpl.dispatchEvent(Unknown Source)
    at [email protected]/com.sun.javafx.event.EventUtil.fireEventImpl(Unknown Source)
    at [email protected]/com.sun.javafx.event.EventUtil.fireEvent(Unknown Source)
    at [email protected]/javafx.event.Event.fireEvent(Unknown Source)
    at [email protected]/javafx.scene.Scene$MouseHandler.process(Unknown Source)
    at [email protected]/javafx.scene.Scene.processMouseEvent(Unknown Source)
    at [email protected]/javafx.scene.Scene$ScenePeerListener.mouseEvent(Unknown Source)
    at [email protected]/com.sun.javafx.tk.quantum.GlassViewEventHandler$MouseEventNotification.run(Unknown Source)
    at [email protected]/com.sun.javafx.tk.quantum.GlassViewEventHandler$MouseEventNotification.run(Unknown Source)
    at java.base/java.security.AccessController.doPrivileged(Unknown Source)
    at [email protected]/com.sun.javafx.tk.quantum.GlassViewEventHandler.lambda$handleMouseEvent$2(Unknown Source)
    at [email protected]/com.sun.javafx.tk.quantum.QuantumToolkit.runWithoutRenderLock(Unknown Source)
    at [email protected]/com.sun.javafx.tk.quantum.GlassViewEventHandler.handleMouseEvent(Unknown Source)
    at [email protected]/com.sun.glass.ui.View.handleMouseEvent(Unknown Source)
    at [email protected]/com.sun.glass.ui.View.notifyMouse(Unknown Source)
    at [email protected]/com.sun.glass.ui.mac.MacView.notifyMouse(Unknown Source)
Caused by: java.lang.reflect.InvocationTargetException
    at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
    at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(Unknown Source)
    at java.base/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(Unknown Source)
    at java.base/java.lang.reflect.Method.invoke(Unknown Source)
    at com.sun.javafx.reflect.Trampoline.invoke(Unknown Source)
    at jdk.internal.reflect.GeneratedMethodAccessor4.invoke(Unknown Source)
    at java.base/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(Unknown Source)
    at java.base/java.lang.reflect.Method.invoke(Unknown Source)
    at [email protected]/com.sun.javafx.reflect.MethodUtil.invoke(Unknown Source)
    at [email protected]/com.sun.javafx.fxml.MethodHelper.invoke(Unknown Source)
    ... 45 more
Caused by: java.lang.IllegalStateException: IOException reading next record: java.io.IOException: (line 1) invalid char between encapsulated token and delimiter
    at [email protected]/org.apache.commons.csv.CSVParser$CSVRecordIterator.getNextRecord(Unknown Source)
    at [email protected]/org.apache.commons.csv.CSVParser$CSVRecordIterator.hasNext(Unknown Source)
    at [email protected]/org.jabref.logic.journals.AbbreviationParser.readJournalList(Unknown Source)
    at [email protected]/org.jabref.logic.journals.AbbreviationParser.readJournalListFromFile(Unknown Source)
    at [email protected]/org.jabref.logic.journals.AbbreviationParser.readJournalListFromFile(Unknown Source)
    at [email protected]/org.jabref.logic.journals.JournalAbbreviationLoader.readJournalListFromFile(Unknown Source)
    at [email protected]/org.jabref.gui.journals.AbbreviationsFileViewModel.readAbbreviations(Unknown Source)
    at [email protected]/org.jabref.gui.journals.ManageJournalAbbreviationsViewModel.openFile(Unknown Source)
    at java.base/java.util.Optional.ifPresent(Unknown Source)
    at [email protected]/org.jabref.gui.journals.ManageJournalAbbreviationsViewModel.openFile(Unknown Source)
    at [email protected]/org.jabref.gui.journals.ManageJournalAbbreviationsView.openList(Unknown Source)
    ... 55 more
Caused by: java.io.IOException: (line 1) invalid char between encapsulated token and delimiter
    at [email protected]/org.apache.commons.csv.Lexer.parseEncapsulatedToken(Unknown Source)
    at [email protected]/org.apache.commons.csv.Lexer.nextToken(Unknown Source)
    at [email protected]/org.apache.commons.csv.CSVParser.nextRecord(Unknown Source)
    ... 66 more

zoushucai on 5 Jul 2020

This seems to be related to the journal abbreviations

Siedlerchr on 5 Jul 2020

@krantisaran Can you please test again with the latest master? Note that you can also directly paste the bibtex code on the main table.
@zoushucai Could you please add some steps what you did`?

Siedlerchr on 5 Jul 2020

JabRef 5.1--2020-07-06--5e5c137
Mac OS X 10.15.5 x86_64
Java 14.0.1

I don't get that particular error again. However the latest build has caused bug #4877 to come back again with endless cycles, and it did cause this error message which may be related to #4633:

java.lang.NullPointerException at [email protected]/org.jabref.gui.collab.EntryChangeViewModel.makeChange(Unknown Source) at [email protected]/org.jabref.gui.collab.ChangeDisplayDialog.lambda$new$2(Unknown Source) at [email protected]/javafx.scene.control.Dialog.setResultAndClose(Unknown Source) at [email protected]/javafx.scene.control.DialogPane.lambda$createButton$3(Unknown Source) at [email protected]/com.sun.javafx.event.CompositeEventHandler$NormalEventHandlerRecord.handleBubblingEvent(Unknown Source) at [email protected]/com.sun.javafx.event.CompositeEventHandler.dispatchBubblingEvent(Unknown Source) at [email protected]/com.sun.javafx.event.EventHandlerManager.dispatchBubblingEvent(Unknown Source) at [email protected]/com.sun.javafx.event.EventHandlerManager.dispatchBubblingEvent(Unknown Source) at [email protected]/com.sun.javafx.event.CompositeEventDispatcher.dispatchBubblingEvent(Unknown Source) at [email protected]/com.sun.javafx.event.BasicEventDispatcher.dispatchEvent(Unknown Source) at [email protected]/com.sun.javafx.event.EventDispatchChainImpl.dispatchEvent(Unknown Source) at [email protected]/com.sun.javafx.event.BasicEventDispatcher.dispatchEvent(Unknown Source) at [email protected]/com.sun.javafx.event.EventDispatchChainImpl.dispatchEvent(Unknown Source) at [email protected]/com.sun.javafx.event.BasicEventDispatcher.dispatchEvent(Unknown Source) at [email protected]/com.sun.javafx.event.EventDispatchChainImpl.dispatchEvent(Unknown Source) at [email protected]/com.sun.javafx.event.BasicEventDispatcher.dispatchEvent(Unknown Source) at [email protected]/com.sun.javafx.event.EventDispatchChainImpl.dispatchEvent(Unknown Source) at [email protected]/com.sun.javafx.event.EventUtil.fireEventImpl(Unknown Source) at [email protected]/com.sun.javafx.event.EventUtil.fireEvent(Unknown Source) at [email protected]/javafx.event.Event.fireEvent(Unknown Source) at [email protected]/javafx.scene.Node.fireEvent(Unknown Source) at [email protected]/javafx.scene.control.Button.fire(Unknown Source) at [email protected]/com.sun.javafx.scene.control.behavior.ButtonBehavior.mouseReleased(Unknown Source) at [email protected]/com.sun.javafx.scene.control.inputmap.InputMap.handle(Unknown Source) at [email protected]/com.sun.javafx.event.CompositeEventHandler$NormalEventHandlerRecord.handleBubblingEvent(Unknown Source) at [email protected]/com.sun.javafx.event.CompositeEventHandler.dispatchBubblingEvent(Unknown Source) at [email protected]/com.sun.javafx.event.EventHandlerManager.dispatchBubblingEvent(Unknown Source) at [email protected]/com.sun.javafx.event.EventHandlerManager.dispatchBubblingEvent(Unknown Source) at [email protected]/com.sun.javafx.event.CompositeEventDispatcher.dispatchBubblingEvent(Unknown Source) at [email protected]/com.sun.javafx.event.BasicEventDispatcher.dispatchEvent(Unknown Source) at [email protected]/com.sun.javafx.event.EventDispatchChainImpl.dispatchEvent(Unknown Source) at [email protected]/com.sun.javafx.event.BasicEventDispatcher.dispatchEvent(Unknown Source) at [email protected]/com.sun.javafx.event.EventDispatchChainImpl.dispatchEvent(Unknown Source) at [email protected]/com.sun.javafx.event.BasicEventDispatcher.dispatchEvent(Unknown Source) at [email protected]/com.sun.javafx.event.EventDispatchChainImpl.dispatchEvent(Unknown Source) at [email protected]/com.sun.javafx.event.BasicEventDispatcher.dispatchEvent(Unknown Source) at [email protected]/com.sun.javafx.event.EventDispatchChainImpl.dispatchEvent(Unknown Source) at [email protected]/com.sun.javafx.event.EventUtil.fireEventImpl(Unknown Source) at [email protected]/com.sun.javafx.event.EventUtil.fireEvent(Unknown Source) at [email protected]/javafx.event.Event.fireEvent(Unknown Source) at [email protected]/javafx.scene.Scene$MouseHandler.process(Unknown Source) at [email protected]/javafx.scene.Scene.processMouseEvent(Unknown Source) at [email protected]/javafx.scene.Scene$ScenePeerListener.mouseEvent(Unknown Source) at [email protected]/com.sun.javafx.tk.quantum.GlassViewEventHandler$MouseEventNotification.run(Unknown Source) at [email protected]/com.sun.javafx.tk.quantum.GlassViewEventHandler$MouseEventNotification.run(Unknown Source) at java.base/java.security.AccessController.doPrivileged(Unknown Source) at [email protected]/com.sun.javafx.tk.quantum.GlassViewEventHandler.lambda$handleMouseEvent$2(Unknown Source) at [email protected]/com.sun.javafx.tk.quantum.QuantumToolkit.runWithoutRenderLock(Unknown Source) at [email protected]/com.sun.javafx.tk.quantum.GlassViewEventHandler.handleMouseEvent(Unknown Source) at [email protected]/com.sun.glass.ui.View.handleMouseEvent(Unknown Source) at [email protected]/com.sun.glass.ui.View.notifyMouse(Unknown Source) at [email protected]/com.sun.glass.ui.mac.MacView.notifyMouse(Unknown Source) at [email protected]/com.sun.glass.ui.mac.MacApplication._enterNestedEventLoopImpl(Native Method) at [email protected]/com.sun.glass.ui.mac.MacApplication._enterNestedEventLoop(Unknown Source) at [email protected]/com.sun.glass.ui.Application.enterNestedEventLoop(Unknown Source) at [email protected]/com.sun.glass.ui.EventLoop.enter(Unknown Source) at [email protected]/com.sun.javafx.tk.quantum.QuantumToolkit.enterNestedEventLoop(Unknown Source) at [email protected]/javafx.stage.Stage.showAndWait(Unknown Source) at [email protected]/javafx.scene.control.HeavyweightDialog.showAndWait(Unknown Source) at [email protected]/javafx.scene.control.Dialog.showAndWait(Unknown Source) at [email protected]/org.jabref.gui.collab.DatabaseChangePane.lambda$onDatabaseChanged$1(Unknown Source) at [email protected]/org.controlsfx.control.action.Action.handle(Unknown Source) at [email protected]/org.controlsfx.control.action.Action.handle(Unknown Source) at [email protected]/com.sun.javafx.event.CompositeEventHandler.dispatchBubblingEvent(Unknown Source) at [email protected]/com.sun.javafx.event.EventHandlerManager.dispatchBubblingEvent(Unknown Source) at [email protected]/com.sun.javafx.event.EventHandlerManager.dispatchBubblingEvent(Unknown Source) at [email protected]/com.sun.javafx.event.CompositeEventDispatcher.dispatchBubblingEvent(Unknown Source) at [email protected]/com.sun.javafx.event.BasicEventDispatcher.dispatchEvent(Unknown Source) at [email protected]/com.sun.javafx.event.EventDispatchChainImpl.dispatchEvent(Unknown Source) at [email protected]/com.sun.javafx.event.BasicEventDispatcher.dispatchEvent(Unknown Source) at [email protected]/com.sun.javafx.event.EventDispatchChainImpl.dispatchEvent(Unknown Source) at [email protected]/com.sun.javafx.event.BasicEventDispatcher.dispatchEvent(Unknown Source) at [email protected]/com.sun.javafx.event.EventDispatchChainImpl.dispatchEvent(Unknown Source) at [email protected]/com.sun.javafx.event.BasicEventDispatcher.dispatchEvent(Unknown Source) at [email protected]/com.sun.javafx.event.EventDispatchChainImpl.dispatchEvent(Unknown Source) at [email protected]/com.sun.javafx.event.BasicEventDispatcher.dispatchEvent(Unknown Source) at [email protected]/com.sun.javafx.event.EventDispatchChainImpl.dispatchEvent(Unknown Source) at [email protected]/com.sun.javafx.event.BasicEventDispatcher.dispatchEvent(Unknown Source) at [email protected]/com.sun.javafx.event.EventDispatchChainImpl.dispatchEvent(Unknown Source) at [email protected]/com.sun.javafx.event.BasicEventDispatcher.dispatchEvent(Unknown Source) at [email protected]/com.sun.javafx.event.EventDispatchChainImpl.dispatchEvent(Unknown Source) at [email protected]/com.sun.javafx.event.BasicEventDispatcher.dispatchEvent(Unknown Source) at [email protected]/com.sun.javafx.event.EventDispatchChainImpl.dispatchEvent(Unknown Source) at [email protected]/com.sun.javafx.event.EventUtil.fireEventImpl(Unknown Source) at [email protected]/com.sun.javafx.event.EventUtil.fireEvent(Unknown Source) at [email protected]/javafx.event.Event.fireEvent(Unknown Source) at [email protected]/javafx.scene.Node.fireEvent(Unknown Source) at [email protected]/javafx.scene.control.Button.fire(Unknown Source) at [email protected]/com.sun.javafx.scene.control.behavior.ButtonBehavior.mouseReleased(Unknown Source) at [email protected]/com.sun.javafx.scene.control.inputmap.InputMap.handle(Unknown Source) at [email protected]/com.sun.javafx.event.CompositeEventHandler$NormalEventHandlerRecord.handleBubblingEvent(Unknown Source) at [email protected]/com.sun.javafx.event.CompositeEventHandler.dispatchBubblingEvent(Unknown Source) at [email protected]/com.sun.javafx.event.EventHandlerManager.dispatchBubblingEvent(Unknown Source) at [email protected]/com.sun.javafx.event.EventHandlerManager.dispatchBubblingEvent(Unknown Source) at [email protected]/com.sun.javafx.event.CompositeEventDispatcher.dispatchBubblingEvent(Unknown Source) at [email protected]/com.sun.javafx.event.BasicEventDispatcher.dispatchEvent(Unknown Source) at [email protected]/com.sun.javafx.event.EventDispatchChainImpl.dispatchEvent(Unknown Source) at [email protected]/com.sun.javafx.event.BasicEventDispatcher.dispatchEvent(Unknown Source) at [email protected]/com.sun.javafx.event.EventDispatchChainImpl.dispatchEvent(Unknown Source) at [email protected]/com.sun.javafx.event.BasicEventDispatcher.dispatchEvent(Unknown Source) at [email protected]/com.sun.javafx.event.EventDispatchChainImpl.dispatchEvent(Unknown Source) at [email protected]/com.sun.javafx.event.BasicEventDispatcher.dispatchEvent(Unknown Source) at [email protected]/com.sun.javafx.event.EventDispatchChainImpl.dispatchEvent(Unknown Source) at [email protected]/com.sun.javafx.event.BasicEventDispatcher.dispatchEvent(Unknown Source) at [email protected]/com.sun.javafx.event.EventDispatchChainImpl.dispatchEvent(Unknown Source) at [email protected]/com.sun.javafx.event.BasicEventDispatcher.dispatchEvent(Unknown Source) at [email protected]/com.sun.javafx.event.EventDispatchChainImpl.dispatchEvent(Unknown Source) at [email protected]/com.sun.javafx.event.BasicEventDispatcher.dispatchEvent(Unknown Source) at [email protected]/com.sun.javafx.event.EventDispatchChainImpl.dispatchEvent(Unknown Source) at [email protected]/com.sun.javafx.event.BasicEventDispatcher.dispatchEvent(Unknown Source) at [email protected]/com.sun.javafx.event.EventDispatchChainImpl.dispatchEvent(Unknown Source) at [email protected]/com.sun.javafx.event.EventUtil.fireEventImpl(Unknown Source) at [email protected]/com.sun.javafx.event.EventUtil.fireEvent(Unknown Source) at [email protected]/javafx.event.Event.fireEvent(Unknown Source) at [email protected]/javafx.scene.Scene$MouseHandler.process(Unknown Source) at [email protected]/javafx.scene.Scene.processMouseEvent(Unknown Source) at [email protected]/javafx.scene.Scene$ScenePeerListener.mouseEvent(Unknown Source) at [email protected]/com.sun.javafx.tk.quantum.GlassViewEventHandler$MouseEventNotification.run(Unknown Source) at [email protected]/com.sun.javafx.tk.quantum.GlassViewEventHandler$MouseEventNotification.run(Unknown Source) at java.base/java.security.AccessController.doPrivileged(Unknown Source) at [email protected]/com.sun.javafx.tk.quantum.GlassViewEventHandler.lambda$handleMouseEvent$2(Unknown Source) at [email protected]/com.sun.javafx.tk.quantum.QuantumToolkit.runWithoutRenderLock(Unknown Source) at [email protected]/com.sun.javafx.tk.quantum.GlassViewEventHandler.handleMouseEvent(Unknown Source) at [email protected]/com.sun.glass.ui.View.handleMouseEvent(Unknown Source) at [email protected]/com.sun.glass.ui.View.notifyMouse(Unknown Source) at [email protected]/com.sun.glass.ui.mac.MacView.notifyMouse(Unknown Source)

krantisaran on 7 Jul 2020

@Siedlerchr Yes, it does have something to do with journal abbreviations. When I loaded a relatively large journal abbreviation table (the csv file has about 12M), the problem appeared,

zoushucai on 8 Jul 2020

This issue will be closed in 7 days due to inactivity :zzz: Please provide the requested information if the problem persists.

github-actions[bot] on 8 Aug 2020

Thanks issue is solved in:

JabRef 5.2--2020-09-04--3db4313
Linux 5.4.0-42-generic amd64 
Java 14.0.2

JoKalliauer on 6 Sep 2020

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