Set correct sample tilt for TKD dataset read from Bruker HDF5 about kikuchipy HOT 5 OPEN

Re-reading the excellent supplementary material to the tutorial paper by Britton et al. (2016) https://doi.org/10.1016/j.matchar.2016.04.008, the tilt of the sample relative to the detector is given by τ = τ_sample - 90 - θ. In this case, this would be τ = 0 - 90 - 5.8 = -95.8, which is incorrect.

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@lukmuk, from hyperspy/rosettasciio#103 I understand that you're a Bruker user. Do you know what a Coordinate System ID of 5 signifies? I'm trying to figure out how I can know that data is acquired with an on-axis TKD detector-sample geometry.

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@hakonanes I have checked all my Bruker user manuals and could not find any information on this Coordinate System ID. I'll send you the latest version I have in email. I will keep searching in case of any clues.

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Thanks @IMBalENce, I'll have a look at the manuals as well.

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@lukmuk, from hyperspy/rosettasciio#103 I understand that you're a Bruker user. Do you know what a Coordinate System ID of 5 signifies? I'm trying to figure out how I can know that data is acquired with an on-axis TKD detector-sample geometry.

Hello @hakonanes ! Yes, we have a Bruker system and I am starting to get into EBSD in the last few months. Kikuchipy helps a lot in processing and understanding the concepts! 😅

Regarding the question:

• I could not find much info in the manual (I have Esprit 2.1 and 2.3, but not much info on this problem here).

• Esprit has a "TKD mode" option in the PC calibration, which I thought may add the additional 90° rotation and may add the system ID (?). However, according to my manual, this "TKD mode" checkbox is only required for the configuration with "flat" TEM sample and "normal"/vertical EBSD detector position (i.e., not on-axis TKD). So I guess this will not set the system ID (but may be double-checked by others?).
  

• The system ID may be set by the settings in the online version for Esprit on the SEM, where the admin/user has to set if the normal off-axis EBSD or on-axis TKD detector is currently mounted. This may set the required additional 90° detector tilt. I will check for info when I am on the microscope next time. Maybe there is some info.

Unfortunately, we do not have the option to export to Bruker's hdf5 format from our Bruker Esprit software, so I cannot check possible changes to the hdf5 metadata. Maybe someone else has access to TKD + Bruker-hdf5-export option?

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