# Jabref with Fedora 27

**URL:** <https://discourse.jabref.org/t/jabref-with-fedora-27/1079>\
**Category:** Help\
**Created:** [March 13, 2018, 9:40am UTC](https://discourse.jabref.org/t/jabref-with-fedora-27/1079 "2018-03-13T09:40:24Z")\
**Posts on this page:** 12\
**Page:** 1

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**Author:** ![laurapoggio-sptools](https://avatars.discourse-cdn.com/v4/letter/l/b5e925/32.png) [@laurapoggio-sptools](https://discourse.jabref.org/u/laurapoggio-sptools)\
**Post date:** [March 13, 2018, 9:40am UTC](https://discourse.jabref.org/t/jabref-with-fedora-27/1079/1 "2018-03-13T09:40:24Z")

</div>

I am trying to use Jabref 4.1 under fedora 27. I downloaded and I am using the jar file. However when launching it I get the frame of the Jabref window completely empty (no buttons, menus, nothing).  
In the command line I get:  
“[AWT-EventQueue-0] WARN org.jabref.JabRefGUI - There seem to be problems with OpenJDK and the default GTK Look&Feel. Using Metal L&F instead. Change to another L&F with caution.  
File: grouptree.fxml not found, attempting with camel case  
File: grouptree.css not found, attempting with camel case”  
The same while using the development snapshot.

As far as I understand this should be a solved issue in version 4.x. So I am probably doing something wrong. Any suggestions would be greatly appreciated.

Thanks

Laura

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<div class="post-metadata">

**Author:** ![Siedlerchr](https://yyz2.discourse-cdn.com/flex030/user_avatar/discourse.jabref.org/siedlerchr/32/216_2.png) [@Siedlerchr](https://discourse.jabref.org/u/Siedlerchr)\
**Post date:** [March 14, 2018, 12:55pm UTC](https://discourse.jabref.org/t/jabref-with-fedora-27/1079/2 "2018-03-14T12:55:07Z")

</div>

Hi,

could you please verify that you are using the latest java 8 version? ( I think the most current is 8u161))  
Run `java -version` in the terminal to display the version

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<div class="post-metadata">

**Author:** ![laurapoggio-sptools](https://avatars.discourse-cdn.com/v4/letter/l/b5e925/32.png) [@laurapoggio-sptools](https://discourse.jabref.org/u/laurapoggio-sptools)\
**Post date:** [March 19, 2018, 8:59am UTC](https://discourse.jabref.org/t/jabref-with-fedora-27/1079/3 "2018-03-19T08:59:26Z")

</div>

This is the output of the command java -version:

openjdk version “1.8.0\_161”  
OpenJDK Runtime Environment (build 1.8.0\_161-b14)  
OpenJDK 64-Bit Server VM (build 25.161-b14, mixed mode)

What is strange is that it was working up to a certain point, but I can not remember exactly what happened when it stopped working.

Thanks

Laura

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<div class="post-metadata">

**Author:** ![tobiasdiez](https://yyz2.discourse-cdn.com/flex030/user_avatar/discourse.jabref.org/tobiasdiez/32/340_2.png) [@tobiasdiez](https://discourse.jabref.org/u/tobiasdiez)\
**Post date:** [March 19, 2018, 10:23am UTC](https://discourse.jabref.org/t/jabref-with-fedora-27/1079/4 "2018-03-19T10:23:52Z")

</div>

It looks like you have selected a look and feel that does not work on your system. You may try to reset the preferences using `java -jar JabRef.jar -d all` from the terminal.

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<div class="post-metadata">

**Author:** ![laurapoggio-sptools](https://avatars.discourse-cdn.com/v4/letter/l/b5e925/32.png) [@laurapoggio-sptools](https://discourse.jabref.org/u/laurapoggio-sptools)\
**Post date:** [March 20, 2018, 7:58am UTC](https://discourse.jabref.org/t/jabref-with-fedora-27/1079/5 "2018-03-20T07:58:44Z")

</div>

It did not work. Also I do not recall changing the look and feel from jabref settings.  
I also deleted the .java folder in my home directory, but it did not change the outcome. Any other place where I could find (and delete) settings?  
Thanks a lot  
Laura

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<div class="post-metadata">

**Author:** ![tobiasdiez](https://yyz2.discourse-cdn.com/flex030/user_avatar/discourse.jabref.org/tobiasdiez/32/340_2.png) [@tobiasdiez](https://discourse.jabref.org/u/tobiasdiez)\
**Post date:** [March 20, 2018, 9:19am UTC](https://discourse.jabref.org/t/jabref-with-fedora-27/1079/6 "2018-03-20T09:19:18Z")

</div>

Ok, that is strange. To be honest, I’ve no clue about the source of the issue you experience. I guess that your java installation got corrupt or misconfigured. Do other java-based application work as expected?

You may also try out the build from [https://builds.jabref.org/maintable-beta](https://builds.jabref.org/maintable-beta), which is a complete rewrite of the main user interface using modern technologies. Maybe this version works for you. But be warned that this build is in an early development stage and may still have some rough edges (see [https://github.com/JabRef/jabref/pull/3621](https://github.com/JabRef/jabref/pull/3621) for an overview of known bugs).

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<div class="post-metadata">

**Author:** ![laurapoggio-sptools](https://avatars.discourse-cdn.com/v4/letter/l/b5e925/32.png) [@laurapoggio-sptools](https://discourse.jabref.org/u/laurapoggio-sptools)\
**Post date:** [March 20, 2018, 3:38pm UTC](https://discourse.jabref.org/t/jabref-with-fedora-27/1079/7 "2018-03-20T15:38:40Z")

</div>

The other java applications do not seem to have big problems. I will try also to reinstall java and to build the new version.  
Thanks a lot

Laura

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<div class="post-metadata">

**Author:** ![TheShrimp](https://avatars.discourse-cdn.com/v4/letter/t/aeb1de/32.png) [@TheShrimp](https://discourse.jabref.org/u/TheShrimp)\
**Post date:** [April 18, 2018, 11:02am UTC](https://discourse.jabref.org/t/jabref-with-fedora-27/1079/8 "2018-04-18T11:02:58Z")

</div>

I am having the same problem. using Fedora 27,  
openjdk version “1.8.0\_162”  
OpenJDK Runtime Environment (build 1.8.0\_162-b12)  
OpenJDK 64-Bit Server VM (build 25.162-b12, mixed mode)

The problem occurs for JabRef-4.0, 4.1 and 4.2 master, it works fine with JabRef 3.8.2.  
I am getting the same warning about Look&Feel and the window is empty. However, if I wait long enough (5 minutes or so) it eventually loads fine. I guess JabRef is just VERY slow.

I also tried to load other L&F in Preferences-\>Appearance, but I get some error messages that JabRef cannot find the files:

12:50:05.697 [pool-3-thread-2] ERROR org.jabref.logic.util.io.CiteKeyBasedFileFinder - Problem in finding files  
java.nio.file.NoSuchFileException: /scratch/home/\*\*\*/JabRef  
at sun.nio.fs.UnixException.translateToIOException(UnixException.java:86) ~[?:1.8.0\_162]  
at sun.nio.fs.UnixException.rethrowAsIOException(UnixException.java:102) ~[?:1.8.0\_162]  
at sun.nio.fs.UnixException.rethrowAsIOException(UnixException.java:107) ~[?:1.8.0\_162]  
at sun.nio.fs.UnixFileAttributeViews$Basic.readAttributes(UnixFileAttributeViews.java:55) ~[?:1.8.0\_162]  
at sun.nio.fs.UnixFileSystemProvider.readAttributes(UnixFileSystemProvider.java:144) ~[?:1.8.0\_162]  
at sun.nio.fs.LinuxFileSystemProvider.readAttributes(LinuxFileSystemProvider.java:99) ~[?:1.8.0\_162]  
at java.nio.file.Files.readAttributes(Files.java:1737) ~[?:1.8.0\_162]  
at java.nio.file.FileTreeWalker.getAttributes(FileTreeWalker.java:219) ~[?:1.8.0\_162]  
at java.nio.file.FileTreeWalker.visit(FileTreeWalker.java:276) ~[?:1.8.0\_162]  
at java.nio.file.FileTreeWalker.walk(FileTreeWalker.java:322) ~[?:1.8.0\_162]  
at java.nio.file.FileTreeIterator.(FileTreeIterator.java:72) ~[?:1.8.0\_162]  
at java.nio.file.Files.find(Files.java:3687) ~[?:1.8.0\_162]  
at org.jabref.logic.util.io.CiteKeyBasedFileFinder.findFilesByExtension(CiteKeyBasedFileFinder.java:91) ~[JabRef-4.0.jar:?]  
at org.jabref.logic.util.io.CiteKeyBasedFileFinder.findAssociatedFiles(CiteKeyBasedFileFinder.java:42) ~[JabRef-4.0.jar:?]  
at org.jabref.logic.util.io.FileFinder.findAssociatedFiles(FileFinder.java:23) ~[JabRef-4.0.jar:?]  
at org.jabref.gui.fieldeditors.LinkedFilesEditorViewModel.findAssociatedNotLinkedFiles(LinkedFilesEditorViewModel.java:165) ~[JabRef-4.0.jar:?]  
at org.jabref.gui.fieldeditors.LinkedFilesEditorViewModel.lambda$bindToEntry$3(LinkedFilesEditorViewModel.java:150) ~[JabRef-4.0.jar:?]  
at org.jabref.gui.util.BackgroundTask.call(BackgroundTask.java:63) [JabRef-4.0.jar:?]  
at org.jabref.gui.util.DefaultTaskExecutor$1.call(DefaultTaskExecutor.java:63) [JabRef-4.0.jar:?]  
at javafx.concurrent.Task$TaskCallable.call(Task.java:1423) [jfxrt.jar:?]  
at java.util.concurrent.FutureTask.run(FutureTask.java:266) [?:1.8.0\_162]  
at java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:511) [?:1.8.0\_162]  
at java.util.concurrent.FutureTask.run(FutureTask.java:266) [?:1.8.0\_162]  
at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1149) [?:1.8.0\_162]  
at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:624) [?:1.8.0\_162]  
at java.lang.Thread.run(Thread.java:748) [?:1.8.0\_162]

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<div class="post-metadata">

**Author:** ![Siedlerchr](https://yyz2.discourse-cdn.com/flex030/user_avatar/discourse.jabref.org/siedlerchr/32/216_2.png) [@Siedlerchr](https://discourse.jabref.org/u/Siedlerchr)\
**Post date:** [April 19, 2018, 4:35pm UTC](https://discourse.jabref.org/t/jabref-with-fedora-27/1079/9 "2018-04-19T16:35:30Z")

</div>

Hi,

the error which occurs should not be related to the Style option. It indicates that there might be sth wrong with your file directory settings. Please check your directory settings in the library tab and or in the Options

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<div class="post-metadata">

**Author:** ![TheShrimp](https://avatars.discourse-cdn.com/v4/letter/t/aeb1de/32.png) [@TheShrimp](https://discourse.jabref.org/u/TheShrimp)\
**Post date:** [April 20, 2018, 9:14am UTC](https://discourse.jabref.org/t/jabref-with-fedora-27/1079/10 "2018-04-20T09:14:34Z")

</div>

Oh sorry, that is true. I fixed that part. But there is still the same issue that we discuss here.  
Now when I start JabRef I get the following output:

```
10:41:43.025 [AWT-EventQueue-0] INFO org.jabref.logic.importer.OpenDatabase - Opening: ***/NewDatabase.bib
File: grouptree.fxml not found, attempting with camel case
File: grouptree.css not found, attempting with camel case

(java:4146): Gdk-WARNING **: gdkproperty-x11.c:325 invalid X atom: 367

```

JabRef opens a bit slow, but fine. However, when I double click on one line in the database to see the preview, the preview window stays empty for about 5 minutes, and I get the following output in the terminal:

```
10:44:36.730 [JavaFX Application Thread] ERROR org.jabref.FallbackExceptionHandler - Uncaught exception occurred in Thread[JavaFX Application Thread,5,main]
java.util.concurrent.RejectedExecutionException: Task java.util.concurrent.FutureTask@5f0facbe rejected from java.util.concurrent.ThreadPoolExecutor@1543ef6[Terminated, pool size = 0, active threads = 0, queued tasks = 0, completed tasks = 1]
	at java.util.concurrent.ThreadPoolExecutor$AbortPolicy.rejectedExecution(ThreadPoolExecutor.java:2063) ~[?:1.8.0_162]
	at java.util.concurrent.ThreadPoolExecutor.reject(ThreadPoolExecutor.java:830) ~[?:1.8.0_162]
	at java.util.concurrent.ThreadPoolExecutor.execute(ThreadPoolExecutor.java:1379) ~[?:1.8.0_162]
	at java.util.concurrent.AbstractExecutorService.submit(AbstractExecutorService.java:112) ~[?:1.8.0_162]
	at org.jabref.gui.util.DefaultTaskExecutor.execute(DefaultTaskExecutor.java:45) ~[JabRef-4.0.jar:?]
	at org.jabref.gui.fieldeditors.LinkedFilesEditorViewModel.bindToEntry(LinkedFilesEditorViewModel.java:152) ~[JabRef-4.0.jar:?]
	at org.jabref.gui.fieldeditors.LinkedFilesEditor.bindToEntry(LinkedFilesEditor.java:201) ~[JabRef-4.0.jar:?]
	at org.jabref.gui.entryeditor.FieldsEditorTab.setupPanel(FieldsEditorTab.java:118) ~[JabRef-4.0.jar:?]
	at org.jabref.gui.entryeditor.FieldsEditorTab.<init>(FieldsEditorTab.java:64) ~[JabRef-4.0.jar:?]
	at org.jabref.gui.entryeditor.EntryEditor.addTabs(EntryEditor.java:342) ~[JabRef-4.0.jar:?]
	at org.jabref.gui.entryeditor.EntryEditor.lambda$new$0(EntryEditor.java:209) ~[JabRef-4.0.jar:?]
	at com.sun.javafx.application.PlatformImpl.lambda$null$5(PlatformImpl.java:295) ~[jfxrt.jar:?]
	at java.security.AccessController.doPrivileged(Native Method) ~[?:1.8.0_162]
	at com.sun.javafx.application.PlatformImpl.lambda$runLater$6(PlatformImpl.java:294) ~[jfxrt.jar:?]
	at com.sun.glass.ui.InvokeLaterDispatcher$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$5(GtkApplication.java:139) ~[jfxrt.jar:?]
	at java.lang.Thread.run(Thread.java:748) [?:1.8.0_162]

```

I guess, it is something with JavaFX!?

Afterwards, when it finally loads the details in the preview window, I try to set a file link, i.e. download the pdf file for this entry, I get the same error in the terminal and nothing happens (at least for 10 minutes).

---

<div class="post-metadata">

**Author:** ![Siedlerchr](https://yyz2.discourse-cdn.com/flex030/user_avatar/discourse.jabref.org/siedlerchr/32/216_2.png) [@Siedlerchr](https://discourse.jabref.org/u/Siedlerchr)\
**Post date:** [April 20, 2018, 3:08pm UTC](https://discourse.jabref.org/t/jabref-with-fedora-27/1079/11 "2018-04-20T15:08:33Z")

</div>

Hi,

you could try changing the Look & Feel in the Options -\> Apperance to another one. We had issues with GTK Look and Feel which might explain your problems

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<div class="post-metadata">

**Author:** ![TheShrimp](https://avatars.discourse-cdn.com/v4/letter/t/aeb1de/32.png) [@TheShrimp](https://discourse.jabref.org/u/TheShrimp)\
**Post date:** [May 4, 2018, 10:49am UTC](https://discourse.jabref.org/t/jabref-with-fedora-27/1079/12 "2018-05-04T10:49:13Z")

</div>

Changing Look & Feel does not help with the entry editor issue. The preview is just fine and opens immediately, but if I double click on one entry it takes approx. 5 minutes to open the entry editor. Once it opened, if I click on any tab in the entry editor the same, again it takes about 5 minutes to open the tab. No output in the console, no CPU usage, constant memory usage of about 400 MB.

I updated both java and Jabref and the problem persists.

java version “1.8.0\_171” (tried both openjdk and oracle)  
JabRef-4.2.jar  
Fedora 27

Output:  
 java -jar JabRef-4.2.jar & [2] 8557 12:40:08.319 [AWT-EventQueue-0] INFO org.jabref.logic.importer.OpenDatabase - Opening: /home/jneumann/Programs/latex/NewDatabase.bib  
File: grouptree.fxml not found, attempting with camel case  
File: grouptree.css not found, attempting with camel case