Ab-initio error

3D Reconstruction
21

Looks like that patch wasn’t applied yet (we just updated to 4.7.1 on the 13th, so we just missed it). Will try applying the patch and see if that helps, thanks!

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22

I applied the patch and tried re-running the job. It failed again, but this time I got a different error:

Traceback (most recent call last):
File “cryosparc_master/cryosparc_compute/run.py”, line 129, in cryosparc_master.cryosparc_compute.run.main
File “cryosparc_master/cryosparc_compute/jobs/abinit/run.py”, line 247, in cryosparc_master.cryosparc_compute.jobs.abinit.run.run_homo_abinit
File “/spshared/apps/cryosparc4/cryosparc_worker/cryosparc_compute/sigproc.py”, line 471, in align_density
assert n.all(n.isfinite(mu))
AssertionError

I saw there is a different older thread here about this error: AssertionError of running Ab-Initio Reconstruction

Any ideas? Thanks!

23

Please can you test if disabling the parameters

  • Center structures in real space
  • and Enforce non-negativity

enables the job to run?

1 Like
24

Thanks for the suggestion. I tested it and it did run to completion this time!

1 Like