Urgent Assistance Needed for App Launch Issue

[kryptonic963]

Dear IGV Support Team,
I hope this message finds you well. The IGV program used to work perfectly on our desktop devices but suddenly it stopped lunching. we deleted the program and tried both the Windows version with Java and the version without Java separately, but we are still unable to launch the app. This issue is urgent, as we have many patient files that need analysis.
Could you please provide guidance on how to resolve this?
Thank you for your assistance.
Best regards..

[lbergelson]

Hello, it's hard to help without additional information.

1. Could you please provide the most recent log files from igv. They would be in your home folder in the igv directory named something like igv0.log
2. Was there any change in your system that could have caused this?
3. What version of IGV were you running / are you trying now.

One thing to try is to remove your existing igv preferences file. It's also in the igv folder name prefs.properties. Try deleting or renaming that (if you want to save your previous preferences rename it and you can always put it back later. If you don't care just delete it).

[kryptonic963]

thank you for commenting, I'll try my best to give you the propper ansewers.
Here's what it said last on the igv most recent log file [ShutdownThread.java:47] Shutting down and I tried deleting and changing the prefs.properties name but nothing changed, than I discovered another message in a different not book which says the following Disable a JAXB optimization that causes illegal access exceptions on Java 11
-Dcom.sun.xml.bind.v2.bytecode.ClassTailor.noOptimize
in which I think that this maybe the main problem?

[lbergelson]

@kryptonic963 It would be helpful if you could upload the entire log file. That isn't really enough information to diagnose a problem from that one line.

Removing the preferences was sort of a long shot, it should generally still work even if the preference file is messed up, but it never hurts to try.

How are you running IGV? Are you clicking on the prebuilt executable? Are you running it from the command line? That argument you mention should be included by default in the launcher script so it's odd that it's not set.

The more information you can provide the easier it is to diagnose a problem.

• What version of IGV are you trying to run?
• What version of Java are you using? i(run java -version on the command line if you're not sure what your system java is)
• Are you using a mac/windows/linux machine?
• is it an intel processor or an apple or arm processor?