The SAMsrcV3 suite implements the latest advances in MEG source localization. Compared with the older CTF tools, there are many new features (some of them experimental). Filtering options, more flexible control over active, control, and noise covariance matrices, dual-state imaging, realistic head models, and several flavors of multipole source imaging are available.
Allocate an interactive session and run the program.
Sample session (user input in bold):
[user@biowulf]$ sinteractive salloc.exe: Pending job allocation 46116226 salloc.exe: job 46116226 queued and waiting for resources salloc.exe: job 46116226 has been allocated resources salloc.exe: Granted job allocation 46116226 salloc.exe: Waiting for resource configuration salloc.exe: Nodes cn3144 are ready for job [user@cn3144 ~]$ module load samsrcv3 [user@cn3144 ~]$ sam_cov -r my_dataset -m settings.param [user@cn3144 ~]$ exit salloc.exe: Relinquishing job allocation 46116226 [user@biowulf ~]$
Create a batch input file (e.g. samsrc.sh). For example:
#!/bin/bash set -e module load samsrcv3 sam_cov -r my_dataset -m settings.param
Submit this job using the Slurm sbatch command.
sbatch [--cpus-per-task=#] [--mem=#] samsrc.sh
Create a swarmfile (e.g. samsrc.swarm). For example:
sam_cov -r dataset01 -m settings.param sam_cov -r dataset02 -m settings.param sam_cov -r dataset03 -m settings.param sam_cov -r dataset04 -m settings.param
Submit this job using the swarm command.
swarm -f samsrc.swarm [-g #] [-t #] --module samsrcv3where
-g # | Number of Gigabytes of memory required for each process (1 line in the swarm command file) |
-t # | Number of threads/CPUs required for each process (1 line in the swarm command file). |
--module samsrcv3 | Loads the SAMsrcV3 module for each subjob in the swarm |