195 improve tutorial notebook header boilerplate

imagej / pyimagej

Use ImageJ from Python

https://pyimagej.readthedocs.io/

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195 improve tutorial notebook header boilerplate #234

Closed gselzer closed 2 years ago

gselzer commented 2 years ago

This actually makes a couple other changes.

Links between notebooks were broken. They are now fixed.
pooch was used to download some skimage example images. It is now a part of the environments.
Disclaimers were added about the napari and itkwidgets sections of the notebooks, because we don't want to include those be default in the environments.

gselzer commented 2 years ago

@ctrueden let me know what you think.

I think therer's one problem that should be addressed - the inability to convert/display scijava Tables. @ctrueden once we can depend on @elevans' fix, rerunning doc/07-Running-Macros-Scripts-and-Plugins.ipynb and doc/Puncta-Segmentation.ipynb (and merging those changes into the WIP commit) should be all that's needed to merge, unless you see anything else.

gselzer commented 2 years ago

@ctrueden I used @elevans' work to fix the errors with the SciJava Tables, should be good to go!

ctrueden commented 2 years ago

@gselzer It looks like you also fixed problems with image math? But thanks, that's a good thing. :+1: