...
You could run additional helper script called cryosparc_idle_watcher.sh
to check whether there are any cryoSPARC worker jobs running and finish cryoSPARC master job when there aren't any jobs for some time.
Code Block | ||
---|---|---|
| ||
cryosparc_idle_watcher <timeout> |
...
After changing cryoSPARC master version (i.e. by changing module that you load) cluster lanes are still pointing to previous version of cryoSPARC workers. It could show as error:
Code Block | ||||
---|---|---|---|---|
| ||||
File "cryosparc_worker/cryosparc_compute/run.py", line 46, in cryosparc_compute.run.main AssertionError: Version mismatch! Worker version (v3.2.0+210629) and Master version (v3.2.0+210413) are not the same. Please update. |
You have to update cluster lanes.
Start interactive job
Code Block language bash title Interactive job srun -p plgrid-services --nodes=1 --ntasks=1 --time=0-1 --pty bash
Load cryoSPARC environment using module (remember to use correct version of cryoSPARC)
Code Block language bash title Load cryoSPARC environment module add plgrid/apps/cryosparc/<version>
Run script that update cluster lanes
Warning title cryoSPARC master job There should be only one job which run cryoSPARC master per user. Therefore you should stop job with cryoSPARC master before this step.
Code Block language bash title Load cryoSPARC environment cryosparc_lanes_updater
Stop cryoSPARC master
Code Block language bash title run cryoSPARC master cryosparcm stop
End interactive job
Code Block language bash title end interactive job exit