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Gephi forums •gephi does not display the graph anymore

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gephi does not display the graph anymore

https://forum-gephi.org/viewtopic.php?f=4&t=6614

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gephi does not display the graph anymore

Posted: 12 Jun 2018 02:28
by akratz
:?:
I was using gephi 0.9.2 without any problems under Ubuntu 16.04 LTS.

Suddenly, gephi does not render anything anymore at all. It is still functional regarding tabs, buttons, textual elements, can even calculate stuff in the "statistics" panel, but the main window where the graph usually appears simply does not render anything.

I do not know what triggered this behaviour, but I think it might have happened after a sudo apt-get update, sudo apt-get upgrade. Or maybe it was something else entirely.

I completely deleted gephi, downloaded from scratch, the behaviour persists. Therefore I think it has nothing to do with my gephi per se, but maybe with the java backend?

I would be very thankful for help. I am relying on gephi, it is criticial for my project and I do not know how to fix this, now totally stuck.

Product Version: Gephi 0.9.2 201709241107
Updates: Updates available
Java: 1.8.0_171; OpenJDK 64-Bit Server VM 25.171-b11
Runtime: OpenJDK Runtime Environment 1.8.0_171-8u171-b11-0ubuntu0.16.04.1-b11
System: Linux version 4.13.0-45-generic running on amd64; UTF-8; en_US (gephi)
User directory: /home/kratz/.gephi/0.9.2/dev
Cache directory: /home/kratz/.gephi/0.9.2/dev/var/cache

Re: gephi does not display the graph anymore

Posted: 13 Jun 2018 10:47
by eduramiba
Hi,
Please make sure to have proper graphics card drivers installed. I suggest trying with latest mesa drivers.

Re: gephi does not display the graph anymore

Posted: 19 Aug 2018 12:30
by ifizer
Same occurred to me too. I updated Kubuntu 16.04.5 to 18.04. It has been some months I have not used Gephi. Now the graph is not appearing. It initializes it and it don't finish.

Can I debug the situation somekind? I want get more info what went wrong. My computer is HP 8200 and I use Kubuntu.

Re: gephi does not display the graph anymore

Posted: 19 Aug 2018 12:40
by eduramiba
Hi,
Please try to delete gephi user directory https://github.com/gephi/gephi/wiki/Troubleshooting and restart.
Also make sure drivers are ok, and if still not working try to enable software rendering as explained here:
https://github.com/gephi/gephi/issues/1962 and https://github.com/gephi/gephi/issues/1836
with env variable

Code: Select all

LIBGL_ALWAYS_SOFTWARE=1

Re: gephi does not display the graph anymore

Posted: 19 Aug 2018 13:09
by ifizer
My computer uses open jdk. There is a path java-11-openjdk-i386. If this affects something.

I deleted ~/.gephi and started it in console:

Code: Select all

me@mycomp:~/temp/gephi/gephi-0.9.2/bin$ ./gephi
WARNING: An illegal reflective access operation has occurred
WARNING: Illegal reflective access by org.netbeans.ProxyURLStreamHandlerFactory (file:/home/me/temp/gephi/gephi-0.9.2/platform/lib/boot.jar) to field java.net.URL.handler
WARNING: Please consider reporting this to the maintainers of org.netbeans.ProxyURLStreamHandlerFactory
WARNING: Use --illegal-access=warn to enable warnings of further illegal reflective access operations
WARNING: All illegal access operations will be denied in a future release
Gephi doesn't find old projects anymore.

Re: gephi does not display the graph anymore

Posted: 19 Aug 2018 13:15
by eduramiba
Yeah the warnings should not be a problem. But you should try to use Java 8, Java 9 or later is not supported yet.

Re: gephi does not display the graph anymore

Posted: 19 Aug 2018 14:09
by ifizer
I changed to java 8. That didn't solve the problem.

Re: gephi does not display the graph anymore

Posted: 19 Aug 2018 14:22
by eduramiba
Is gephi correctly picking java 8? Did you try the software rendering? What driver and graphics card does your system report?

Re: gephi does not display the graph anymore

Posted: 21 Aug 2018 21:45
by ifizer
Kubuntu got an update to JDK 11. And now starting Gephi it returns to command prompt with error messages.

Code: Select all

WARNING: An illegal reflective access operation has occurred
WARNING: Illegal reflective access by org.netbeans.ProxyURLStreamHandlerFactory (file:/home/me/temp/gephi/gephi-0.9.2/platform/lib/boot.jar) to field java.net.URL.handler
WARNING: Please consider reporting this to the maintainers of org.netbeans.ProxyURLStreamHandlerFactory
WARNING: Use --illegal-access=warn to enable warnings of further illegal reflective access operations
WARNING: All illegal access operations will be denied in a future release
%

Re: gephi does not display the graph anymore

Posted: 22 Aug 2018 11:24
by eduramiba
You need to use Java 8, sorry. https://medium.com/coderscorner/install ... 5507b13343
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