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Published 20 hours ago • verified publisher icon soedinglab

HHBLITS throughs segmentation fault

Open satwika007 opened this issue 4 years ago • 2 comments

I am trying to generate a3m and hhr files using hhblits 3.2.0. My fasta file sequence length is 53. When I try to execute hhblits with that input file, it shows segmentation fault. For the testing purpose, I have reduced the sequence length to 5. It is working fine without any error. I thought it is a memory issue. So I allocated 26gb ram for execution. Still, it shows segmentation fault. Can anybody help me?

My input command: hhblits -i 1a02F00.fasta -oa3m 1a02F00.a3m -o 1a02F00.hhr -d ../hhblits/uniclust30_2018_08 -cpu 4 -n 3

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satwika007 avatar Jul 30 '20 12:07 satwika007

I can't reproduce the issue locally.

Can you try a newer version of the database (http://wwwuser.gwdg.de/~compbiol/uniclust/2020_03)? Does it also happen on another machine? Can you try using the latest git version of HHsuite?

milot-mirdita avatar Aug 13 '20 13:08 milot-mirdita

Hi, did you resolve this issue? I'm having the same problem, could you let me know how you resolved it?

xinyu-g avatar Oct 09 '21 08:10 xinyu-g