Thanks for sharing the job logs!
Would you be able to confirm that you are working at UseGalaxy.eu? And, are you following a tutorial (this one?) or is this your own data.
I’m also starting up an independent test at the EU server with the tutorial data to see if I can trigger the same error, but if you would like to capture the Job Details table for your run (lists all runtime parameters) that would be very helpful! A peek at your genome file would be helpful too (also on that view, the expanded dataset is enough since it will show all the metadata).
Use the i-info icon on any dataset, or tab into Details from the bug report view.
Let’s start there – I’ll get my simple test going meanwhile. Thanks! 
XRef
- Not all of the available parameters for BRAKER3 can be supported at the public Galaxy servers. Details → genome annotation with Braker3
- Then, if you want to run this on your own computer, there is a Docker image recommended by the tool authors. Details → Installing BRAKER3 with GENEMARK configured on a local Galaxy server - #6 by abretaud