Color leak when outline_alpha=1 and full_alpha=0

@MeyerBender

Originally reported by @MeyerBender

normalization of channels: see differences between the two notebooks when plotting all channels but DAPI. I guess it is intentional that no normalization is performed by default, and it should be possible to normalize channels using the “norm” argument, but the documentation isn’t very clear on how to do this properly.

Using outline_alpha=1 and full_alpha=0 leads to plots like this one (notebook here):

Probably the erosion step misses some pixels.

Example code snippet:

import spatialdata as sd
import spatialdata_plot
from spatialdata.datasets import blobs

sdata = blobs()
sdata.pl.render_images(channel=0).pl.render_labels(outline_alpha=1, fill_alpha=0).pl.show()

For some reason this also creates two colorbars, not sure why.

Created a PR fixing this issue. Also, the two colorbars were the result of there being two images/labels in the blobs dataset (one normal and one multiscale). sdata.pl.render_images('blobs_image', channel=0).pl.render_labels('blobs_labels', outline_alpha=1, fill_alpha=0).pl.show() works as it should and only creates one colorbar.

Fixed with #525

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Color leak when `outline_alpha=1` and `full_alpha=0` #461

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Color leak when outline_alpha=1 and full_alpha=0 #461

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MeyerBender commented on May 14, 2025

MeyerBender commented on Dec 19, 2025

timtreis commented on Mar 29, 2026

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Color leak when `outline_alpha=1` and `full_alpha=0` #461