hhblits segmentation fault.
1
1
Entering edit mode
6 days ago
xinyuccyy ▴ 10

I'm running hhblits and ran into segmentation fault error. I'm not quite sure what is causing the issue. Can someone help me?

sh

hhblits -i input.fasta -o /dev/null -ohhm PROFILE.hhm -n 2 -d uniclust30_2017_04/uniclust30_2017_04 -oa3m MSA.a3m

hh-suite output

hh-suite output

gdb backtrace

gdb bt

segmentation fault hhblits • 1.1k views
ADD COMMENT
0
Entering edit mode

Very difficult to tell from the information your provided, but segmentation errors tend to be memory-related.

How much memory does your computer have? Is the input a single sequence in FASTA format? If not, are the sequences aligned? Are you using a precompiled binary (version?) or did you compile it locally? The more information you provide, the easier will be to troubleshoot it.

ADD REPLY
2
Entering edit mode
6 days ago
5heikki 10.0k

Segmentation fault is nearly always due to exhausted RAM..

ADD COMMENT
0
Entering edit mode

For anyone who might be having the same problem, my segmentation fault was due to exhausted RAM. I switched server, and it worked fine afterwards.

ADD REPLY

Login before adding your answer.

Traffic: 943 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6