``--fix-nan-and-inf-value`` can only be the max value in the sinogram

[canismarko]

The --fix-nan-and-inf option will replace all the nan and inf values in the new value specified in --fix-nan-and-inf-value. It will also replace any values above the new value with the new value itself, effectively chopping off the top end of the histogram (

tomopy-cli/tomopy_cli/prep.py

Line 49 in b49125d

data[data > params.fix_nan_and_inf_value] = params.fix_nan_and_inf_value

). This is not mentioned in the help string for this option, and so if I choose, for example, the median value in the sinogram as my new value, I will not get a sensible reconstruction but with indication why.

I think we should either (in order of preference):

1. Get rid of this one line. Does anyone still use this feature? It was originally added by Alan during my 7-BM-B beamtime in Feb 2020.
2. Add a separate option to cap the allowed values in the sinogram.
3. Indicate in the help string for the --fix-nan-and-inf option that it will cap the values in the sinogram so at least this clear when using that option.

Thoughts?