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[wip] Starting to port Albert's scripts#505

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kephale wants to merge 3 commits into
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albert-example-scripts
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[wip] Starting to port Albert's scripts#505
kephale wants to merge 3 commits into
mainfrom
albert-example-scripts

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@kephale

@kephale kephale commented Jun 15, 2023

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Closes #373

@kephale

kephale commented Jun 15, 2023

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I've started on https://syn.mrc-lmb.cam.ac.uk/acardona/fiji-tutorial/#find-peaks

I was able to get it running, but it is not the correct visualization yet. It currently looks like:
image

As you can see there are some scaling/offset issues to resolve. The script is also longer than I'd like, but I'm just trying to air it out for now. I also don't want this to use 3 separate volumes, but it was simply faster in this situation.

Tagging @acardona so he knows where the code is living.

@kephale

kephale commented Jun 16, 2023

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Ok, find-peaks is fixed:

image

It is longer than the original, but still pretty clean: https://github.com/scenerygraphics/sciview/blob/albert-example-scripts/src/main/resources/sc/iview/scripts/find_and_count_cells_cardona.py

I didn't try to do any refactoring of the old ImgLib1 stuff.

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Porting Albert's 3d fiji tutorials to sciview

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