Heterogeneous refinement issue - 'NoneType' object is not subscriptable


I’m new in cryo-EM data processing and I’m trying to do the heterogeneous refinement, but I got this error message:

Traceback (most recent call last):
  File "cryosparc2_worker/cryosparc2_compute/run.py", line 82, in cryosparc2_compute.run.main
  File "cryosparc2_worker/cryosparc2_compute/jobs/hetero_refine/run.py", line 476, in cryosparc2_compute.jobs.hetero_refine.run.run_hetero_refine
TypeError: 'NoneType' object is not subscriptable

Does anyone know what this means?

What I did for now:

  1. Rounds of 2D classification (remove some junks)
  2. Ab-initio reconstruction with 3 classes
  3. Heterogeneous refinement. My inputs for heterogeneous refinement are: the 3 volumes from ab-initio reconstruction and all particles from ab-initio reconstruction.

Am I missing something?


Hi @fernandesj, do you happen to have the “Show plots from intermediate steps” option disabled? Can you try enabling it as per this post?

1 Like

Hi @nfrasser, thank you for your reply. I had the “Show plots from intermediate steps” disabled. I’ve started the job again without changing this option (leaving it on) and it is working now. Thank you so much!

1 Like

@fernandesj FYI this option is now fixed in the latest cryoSPARC v2.15, feel free to disable intermediate plots after you update!