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icbi-lab / nextNEOpi

nextNEOpi: a comprehensive pipeline for computational neoantigen prediction
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Error executing process > 'make_uBAM (sample1 : normal_DNA)' #23

Closed rezakj closed 1 year ago

rezakj commented 1 year ago

Hi,

I am getting the following error (make_uBAM). I attached the log file.

Thanks for the help and. the amazing pipeline.

slurm-21392618.out.txt

riederd commented 1 year ago

Hi, thanks for your interest in nextNEOpi

It seems that your slurm scheduler has killed the job because it was running out of memory:

slurmstepd-fn2-0002: error: *** JOB 21392618 ON fn2-0002 CANCELLED AT 2023-04-17T11:26:50 ***
slurmstepd-fn2-0002: error: Detected 1 oom-kill event(s) in StepId=21392618.batch. Some of your processes may have been killed by the cgroup out-of-memory handler.

You might need to reserve more memory, you can do so in conf/process.config

https://github.com/icbi-lab/nextNEOpi/blob/aac260dbd5da701d22a09846045f3f42981cd4a1/conf/process.config#L28

add: memory '64 GB'

rezakj commented 1 year ago

Thank you so much!