perl oom program kiiled

uw-ipd / RoseTTAFold2NA

RoseTTAFold2 protein/nucleic acid complex prediction

MIT License

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perl oom program kiiled #43

Open AAVwhit opened 1 year ago

AAVwhit commented 1 year ago

When I run the ../input_prep/reprocess_rnac.pl id_mapping.tsv.gz rfam_annotations.tsv.gz command I get this error: oom-kill:constraint=CONSTRAINT_NONE,nodemask=(null),cpuset=/,mems_allowed=0,global_oom,task_memcg=/,task=reprocess_rnac.,pid=334,uid=1000 [ 142.115180] Out of memory: Killed process 334 (reprocess_rnac.) total-vm:9579944kB, anon-rss:7421640kB, file-rss:0kB, shmem-rss:0kB, UID:1000 pgtables:18624kB oom_score_adj:0

anyone know what this means?

salireza111 commented 7 months ago

Hello That's about your memory, simply you can increase your swap space. Check it out:

"https://askubuntu.com/questions/178712/how-to-increase-swap-space"

I believe that 32g of swap enough for this task.

SuhasSrinivasan commented 4 months ago

I had encountered a similar Out of memory issue and found a workaround. Documented here: https://github.com/uw-ipd/RoseTTAFold2NA/issues/96 Hope this is helpful.