Manually Curate (Ver. 2.13)

[stavros]

Hello,
I am trying to run the manually curate after MotionCorrection and Patch CTF estimation, however it fails with the following error:

[CPU: 183.4 MB] Traceback (most recent call last):
File “cryosparc2_master/cryosparc2_compute/run.py”, line 78, in cryosparc2_compute.run.main
File “cryosparc2_compute/jobs/curate_exposures/run.py”, line 142, in run
if params[‘calc_intensity’]:
KeyError: ‘calc_intensity’

Thanks in advance

[stephan]

Hi @stavros,

Please start a new Exposure Curation Job and try again. If that doesn’t work, run cryosparcm cli "refresh_job_types()"

[stavros]

cryosparcm cli “refresh_job_types()”

I have tried both of those things and I still get the same error. [Note that I run cryosparcm restart after those commands]

[stephan]

Hi @stavros,

Can you follow this post:

Import Micrographs broken in 2.12?

Hi @Peiyu-Xu, Can you confirm you’re creating a new job and not cloning the original job that caused the issue? If that doesn’t work, can you make sure there are no zombie processes: cryosparcm stop ps -ax | grep “supervisord” (kill only the process that is running from your cryosparc2 install) ps -ax | grep “cryosparc2_command” (kill all the matching processes related to your cryosparc2 instance) ps -ax | grep “mongod” (kill only the process running your cryosparc2 database) e.g. kill 82681…

[stavros]

If that doesn’t work, can you make sure there are no zombie processes: cryosparcm stop ps -ax | grep “supervisord” (kill only the process that is running from your cryosparc2 install) ps -ax | grep “cryosparc2_command” (kill all the matching processes related to your cryosparc2 instance) ps -ax | grep “mongod” (kill only the process running your cryosparc2 database) e.g. kill 82681…

It took two tries but this worked. Thank you.