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help > HPC, conn remotely, salloc, slurm
Apr 9, 2025 12:04 PM | Daniel Simon - Linköping University
HPC, conn remotely, salloc, slurm
I'm very new to HPC and I'd prefer to run CONN as much as possible through the GUI. If I understand it correctly, "conn remotely" seems like the perfect solution!
I have SSH access to a login node and I've already got Matlab 2024b and spm/conn installed and tested. The HPC uses Slurm.
According to my HPC cluster instructions, I need to add some modules each time I start Matlab:
ml add PDC; ml matlab/r2024b
And then I should run Matlab on a processing node, not on the login node. (https://support.pdc.kth.se/doc/applicati...). I guess this means that there needs to be an salloc command and then an SSH to a processing node before starting Matlab?
I've tried to modify my connserver.json file accordingly:
{
"host": "dardel.pdc.kth.se",
"CONNcmd": "ml add PDC; ml
matlab/r2024b; matlab -singleCompThread -nodesktop
-noFigureWindows -nosplash -r \"addpath 'XXXXX/MATLAB/spm'; addpath
'XXXXX/MATLAB/conn'; conn %s; exit\"",
"SERVERcmd": "Slurm",
"SERVERpersistent": false
}
When I try to run "conn remotely" from my local computer, I
get this response and then it just stops indefinitely:
Reading configuration information
from XXXX@dardel.pdc.kth.se:~/connserverinfo.json to
/Users/XXXXX/.conn_cache/conncache_3624ea761c68e03153b81f9752db03e7
Requesting a new Matlab session in XXXXX@dardel.pdc.kth.se. This may take a few minutes, please be patient as your job currently sits in a queue. CONN will resume automatically when the new Matlab session becomes available
Requesting a new Matlab session in XXXXX@dardel.pdc.kth.se. This may take a few minutes, please be patient as your job currently sits in a queue. CONN will resume automatically when the new Matlab session becomes available
As I said, I'm very new to this type of computing. I'm
comfortable on the command line, but I'd really (really!) rather
make this whole process as GUI-based as possible.
Advice, please!
I'm running Matlab locally on an M2 mac, Matlab R2024b update
5, CONN 22v2407, SPM 25.01
Threaded View
| Title | Author | Date |
|---|---|---|
| Daniel Simon | Apr 9, 2025 | |
| Daniel Simon | Apr 16, 2025 | |
| Alfonso Nieto-Castanon | Apr 16, 2025 | |
| Alfonso Nieto-Castanon | Apr 12, 2025 | |
| Daniel Simon | Apr 13, 2025 | |
| Alfonso Nieto-Castanon | Apr 16, 2025 | |