colormap is not considered using napari squidpy plugin

[sophieRAIBAUD]

Description

I can not change the color map of the spatial transcriptomic data in Napari

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Minimal reproducible example

viewer = napari.Viewer() viewer.add_image( img1, colormap='plasma', name="test", metadata={"adata": adata, "library_id": "test"}, )

colormap='plasma' is not considered

Many thanks Sophie

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Traceback

```pytb ... ```

Version

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[giovp]

hi @sophieRAIBAUD , which napari implementation are you using? the one in squidpy or the napari-spatialdata?

[sophieRAIBAUD]

I am using napari with your plugin https://github.com/scverse/napari-spatialdata

[giovp]

great, I moved the issue in the appropriate repository. Will keep it open, we'll take a look!

[sophieRAIBAUD]

many thanks !!

[giovp]

hi @sophieRAIBAUD , one quick question, the colormap you want to change is the one used for plotting the continuos values on the circles overlaying the image right? which should be the same as the one for the colorbar on the bottom left pasrt of the GUI ?

[sophieRAIBAUD]

yes : I would prefer 'magma' or 'plasma' or whatever

[sophieRAIBAUD]

I am also strugglingwith the scale: normally 1 spot = 55µm distance between spots = 100µm in napari I get:

depite typing viewer.scale_bar.visible = True viewer.scale_bar.unit = "µm" Thanks again for the greatfull help !!

[sophieRAIBAUD]