I’d like to inquire if anyone has encountered this issue. In the computational step for particle extraction, the event log indicates that the image processing is complete, yet the job consistently fails to reach the “complete” status and can remain stuck for several hours. I’ve never experienced this in previous calculations. What could be the reasons for this, and how should it be handled?
Welcome to the forum @Annielx .
Please can you post the outputs of these commands on the CryoSPARC master computer:
csprojectid=P99 # replace with actual project ID
csjobid=J199 # replace with actual job id
cryosparcm joblog $csprojectid $csjobid | tail -n 40
cryosparcm cli "get_job('$csprojectid', '$csjobid', 'job_type', 'version', 'instance_information', 'params_spec')"
free -h
nproc
cat /sys/kernel/mm/transparent_hugepage/enabled
and of these commands on the CryoSPARC worker computer on which the job is/was running (which may or may not be the same computer as the master):
uname -a
nproc
cat /sys/kernel/mm/transparent_hugepage/enabled
Thanks for your reply. I’ve solved it by switching to another GPU, and the job has completed successfully.
I had that happen a few times and switching from 4 to 2 GPUs worked.