Stuck on "optimize fsc masks"

3D Refinement
1

Hi all

my job has been stuck on “optimize fsc masks” for about 6 hours so far. No sign of a change.

I have ~20k particles, box 512. I have run many refinements on this data no problem.

The only difference this time is I took one of the maps into chimera and resampled on a different axis so I can apply symmetry in the way I want. The new map imported just fine, but now when I run the job it just hangs on iteration 0.

Tried legacy or new homo refine, same issue for both.

2

to follow up, the refinement ended up finishing… it just sat on optimizing masks for like 12 hours, then spat out a map (after 1 iteration). Not sure if this is a bug.

3

Hi @orangeboomerang, unfortunately this is a known issue with large box sizes in some cases, we are aware and will be working to improve. Thanks!

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