User interface

[sk1p]

We should have a user interface for some of the possibly interactive parts. It should be fine to have this in a notebook, as that's what users are already familiar with. We should use LiberTEM-panel-ui by @matbryan52 for this purpose.

Ideas about workflows with interactivity:

• Building the aperture
  • Include a preview reconstruction for the first hologram in the stack
  • FFT view which shows the selected aperture over the FFT of the first frame
  • Could also include a slider to preview different frames
  • Tweaking the sideband position. Usually the estimated position should work, but the user may want to move it
  • Additional mask tweaks, like adding a line filter (or maybe more generally editing the shape of the aperture, if needed)
• Registration and averaging
  • Selection of the area/slice on which the registration should be run
  • Should be possible to scrub through both the original stack and the aligned stack, and view the averaged result
  • Possibly manually adjust single shift vectors where the auto-alignment failed? Can we cross-check the aligned stack with some similarity measure for finding alignment issues?
• Phase unwrapping
  • Include a manual phase rotation, for example to move phase jumps out of the sample area

For all of these, it should be possible to extract the interactively determined parameters such that a non-interactive script reproducing the whole reconstruction can be published alongside the original data.

For the interactive use-case, it could pay off to make sure computations happen on the GPU, to get good per-hologram performance for the previews.

[matbryan52]

As mentioned elsewhere this should all be feasible with https://github.com/LiberTEM/LiberTEM-panel-ui/ without too much effort. I do need to check again that that repo still functions correctly with an up-to-date Panel / Bokeh.

I have time on Wednesday and Thursday if you want to look at this this week ! Otherwise we can organise something soon.