funannotate update stops

[mgarl-10]

Hello,

I am running funannotate on an insect genome and the program crashes at the funannotate update stage.
When I look at the log file it stops here:
Running PASA annotation comparison step 1

The file pasa.annotation_compare.96711.out found in pasa_run.log.dir is 1.3 Gb.
I ran it multiple times now and it always crashes at that stage. I thought that it could be because the size of my RNAseq data files is quite big (~13 Gb) so I tried to downsize it to randomly select 10% of the reads but it still keeps crashing.

How could I solve this?
Thank you

[hyphaltip]

without more error logs it is hard to diagnose the issue. it seems like PASA is crashing - attaching that 1.3 Gb file isn't going to be useful but you could tail -n 500 pasa.annotation_compare.96711.out as well as any of the pasa logs or funannotate update logs to see if you can determine which step is not able to resolve. If this is an out of memory error or something else.

[mgarl-10]

It doesn’t seem to have any problem. It just stops without any error.
BLOB Length: after_gene_obj: Individual Alignments: (1)
0 ----------------------------------------------------------------------------------------------------- (a+/s+)asmbl_145358

ASSEMBLIES: (1)
----------------------------------------------------------------------------------------------------- (a+/s+)asmbl_145358
ASMBL: asmbl_145358 (fli_status: 0)

---

// Processing cluster: 446820

Is it possible to reuse the pasa files that I got in the training step? Or how could I avoid this step or make it faster?

Thank you