damhof / hofman_et_al_2023_seq

Code for Hofman et al., BioRxiv 2023 May 6;2023.05.04.539399. doi: https://doi.org/10.1101/2023.05.04.539399
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malloc failed error #3

Closed danielrebib closed 5 months ago

danielrebib commented 6 months ago

Hello,

I keep receiving the following error:

../../../src/sbatch/sbatch.c:955: _get_script_buffer: malloc failed /var/lib/slurm-llnl/slurmd/job08387/slurm_script: line 134: trim_jobid: unbound variable

Which seems to be a slurm memory allocation error. However, my nodes can definitely handle the parameters in your default code (I also toggled them, to the point where nothing was running in parallel and it didn't ask for many cores/memory). However, I still get this error.

I believe this may be due to some slurm configuration error on the server, and therefore was wondering if you have any special configurations that need to be changed to make this run correctly.

Thank you!