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Different parameters for fmriprep_example.slurm #6

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fcerpe opened this issue Apr 18, 2023 · 0 comments
Open

Different parameters for fmriprep_example.slurm #6

fcerpe opened this issue Apr 18, 2023 · 0 comments

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@fcerpe
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fcerpe commented Apr 18, 2023

Hi,

after some tests on the cluster, I found a combination of parameters that allows to preprocess a session in around 10 hours Session = anatomical + 14 runs of functional (2 localizers, 12 mvpa runs).

I would suggest changing the example parameters in src/UCLouvain/fmriprep_example.slurm
The parameters I used are the following:

#SBATCH --ntasks=1
#SBATCH --cpus-per-task=4
#SBATCH --mem-per-cpu=20000 # megabytes
#SBATCH --partition=batch,debug

[...]

export OMP_NUM_THREADS=4
export MKL_NUM_THREADS=4

It seems that a number of threads and cores above 4 is not accepted.
Using the script generator wizard, they seem to not be accepted by our cluster (Lemaitre3).

Let me know if more data is needed.
Thanks

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