spades icon indicating copy to clipboard operation
spades copied to clipboard

finished abnormally, OS return value: 11

Open microbpro-cat opened this issue 5 months ago • 2 comments

Description of bug

Hello, I have tried to run SPAdes to assemble illumina short reads, I have use default parameters and used mem=250G, CPUS(thread)=32. However, the high computetional resources I used, I received the error message "finished abnormally, OS return value: 11" and the run stopped. I am wondering if you could help. I posted spades log file if it can support. Below is the error code in the spades.log file.

== Error == system call for: "['/home/tower/anaconda3/envs/get_amd3_re/share/spades-3.13.0-0/bin/spades-core', '/home/tower/Desktop/test/muris_1_re/extended_spades/K55/configs/config.info']" finished abnormally, err code: -11

spades.log

spades.log

params.txt

params.txt

SPAdes version

v.3.13.0

Operating System

Linux-5.14.0

Python Version

python 3.8.10

Method of SPAdes installation

conda

No errors reported in spades.log

  • [x] Yes

microbpro-cat avatar Jul 28 '25 02:07 microbpro-cat

You're using terrible old version of SPAdes. Does the problem reproduce with the recent 4.1?

asl avatar Jul 28 '25 03:07 asl

I'm currently analyzing some parasite data. Unfortunately current versions of SPAdes didn't assemble my data successfully. This is the reason I'm using an old version of SPAdes. And wrote the wrong version. It's 3.13.0. My mistake 🥲 sorry.

microbpro-cat avatar Jul 28 '25 04:07 microbpro-cat