Thanks for the quick response.
Should the following script do the trick ?? meaning use all required
nodes to have at least 3G total memory ? even though my nodes were setup
with 2G each ??
#SBATCH array 1-10%10:1
#SBATCH mem-per-cpu=3000m
srun R CMD BATCH myscript.R
thanks
On 07/02/2018 15:50, Loris Bennett wrote:
Hi David,
david martin <vila...@gmail.com> writes:
Hi,
I would like to submit a job that requires 3Go. The problem is that I have 70
nodes available each node with 2Gb memory.
So the command sbatch --mem=3G will wait for ressources to become available.
Can I run sbatch and tell the cluster to use the 3Go out of the 70Go
available or is that a particular setup ? meaning is the memory
restricted to each node ? or should i allocate two nodes so that i
have 2x4Go availble ?
Check
man sbatch
You'll find that --mem means memory per node. Thus, if you specify 3GB
but all the nodes have 2GB, your job will wait forever (or until you buy
more RAM and reconfigure Slurm).
You probably want --mem-per-cpu, which is actually more like memory per
task. This is obviously only going to work if your job can actually run
on more than one node, e.g. is MPI enabled.
Cheers,
Loris
