Particle extraction does not finish

Troubleshooting
1

Hallo!
I encountered an issue where particle extraction does not finish. If I have for example 2000 micrographs, the software won’t extract the particles from the last 10-100 micrographs and freezes. After waiting for it to finish within a day or two, I killed the job, and marked it as complete to output results. But no results were generated. I encountered this issue multiple times, and the only solution is to limit the number of micrographs that the job will extract from. Does anyone know what could cause this problem?

Many thanks,
Marton

2

Welcome to the forum @MLiziczai.
Can you share with us:

  1. type of cryoSPARC instance: (i) single workstation, (ii) separate master and cryoSPARC-managed worker(s) or (iii) cluster
  2. job.json from the failed job’s directory
  3. job.log from the failed job’s directory
  4. a compressed copy of /path/to/cryosparc_master/run/command_core.log

I’ll send you a direct message regarding the transfer of larger files.

3

I am sorry for the late reply.
It turned out that we had a hardware issue. After it was fixed, this problem went away.

1 Like
4

what was the hardware issue? I am having similar problem.

5

Unfortunately I do not know. Our IT Team corrected it pretty fast tho, without replacing anything.