display atlas images and meshes in pixel space

[alessandrofelder]

Description

What is this PR

• Bug fix
• Addition of a new feature
• Other

Why is this PR needed?
To work well with other Brainglobe napari plugins, brainrender-napari should display things in pixel space. It would be nice to have this in before the teaching next week, for demo purposes.

What does this PR do?
Modifies the napari atlas representation class so it downscales the meshes to pixels, instead of upscaling the images to microns.

References

closes #140 .

How has this PR been tested?

Existing tests pass, (bar some connectivity issues on CI I think)

Is this a breaking change?

Yes, this plugin now works differently.

Checklist:

• The code has been tested locally
• Tests have been added to cover all new functionality (unit & integration)
• The documentation has been updated to reflect any changes
• The code has been formatted with pre-commit

[codecov]

Codecov Report

All modified and coverable lines are covered by tests ✅

Project coverage is 98.06%. Comparing base (c69dd91) to head (7a031fd).
Report is 1 commits behind head on main.

Additional details and impacted files

@@           Coverage Diff           @@
##             main     #160   +/-   ##
=======================================
  Coverage   98.06%   98.06%           
=======================================
  Files          11       11           
  Lines         464      465    +1     
=======================================
+ Hits          455      456    +1     
  Misses          9        9           

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[adamltyson]

Works nicely!

[adamltyson]

Are there any docs that need updating?

[alessandrofelder]

Are there any docs that need updating?

I think not

• docstrings updated as part of this PR
• tutorial makes no mention of the absolute scale