"Mean of empty slice." during Pre-processing (tomo reconstruction)

[PKirchweger]

Hi everyone.

I ran into an interesting problem.
I imported cryo-STET tilt series into nextPYP, and to applied an alignment I previously did in IMOD.
And when I reconstruct the tomograms using IMOD or Aretomo3, regardless of binning, I get this error:

2026-01-18 21:40:45 [INFO] /opt/pyp/bin/run/pyp:4209 | nextPYP (tomoswarm) finished successfully
409 /opt/conda/envs/pyp/lib/python3.8/site-packages/numpy/core/fromnumeric.py:3464: RuntimeWarning: Mean of empty slice.
410 return _methods._mean(a, axis=axis, dtype=dtype,
411 /opt/conda/envs/pyp/lib/python3.8/site-packages/numpy/core/_methods.py:192: RuntimeWarning: invalid value encountered in scalar divide
412 ret = ret.dtype.type(ret / rcount)

I can download the tomogram and open it in 3dmod and it looks fine.
But I can't view the tomogram in the webinterface and I can't pick particles.

I would appriciate suggestions on what change ...

best,
Peter

[abartesaghi]

This issue is related to 161 which was addressed in the pre-release version 0.7.3.