Re: [slurm-users] [External] Autoset job TimeLimit to fit in a reservation

2021-03-30 Thread Renfro, Michael
I'd probably write a shell function that would calculate the time required, and add it as a command-line parameter to sbatch. We do a similar thing for easier interactive shells in our /etc/profile.d folder on the login node: function hpcshell() { srun --partition=interactive $@ --pty bash -i

Re: [slurm-users] R jobs crashing when run in parallel

2021-03-30 Thread Simon Andrews
Interesting idea, thanks. I don't think this looks like the likely cause though: # lsof | wc -l 20675 # cat /proc/sys/fs/file-max 52325451 This is on one of the nodes which had failures. The number of open files is tiny compared to the limit. I know there's a per-process limit, but given th

Re: [slurm-users] [External] Autoset job TimeLimit to fit in a reservation

2021-03-30 Thread Jeremy Fix
Hi Florian, and first of all , thanks for this single line command which is already quite a lot; To give it a bit more sense, I will compute the remaining time until the reservation ends, so just changing $2 in $3 in your command # WEEKRESEND=$(scontrol show res | head -n1 | awk '{print $3}' |