BodenmillerGroup / ImcSegmentationPipeline

A pixel classification based multiplexed image segmentation pipeline
https://bodenmillergroup.github.io/ImcSegmentationPipeline/
MIT License
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`probability2uncertainty` script `cannot compress LZW` #26

Closed votti closed 4 years ago

votti commented 4 years ago

image

The probability2uncertainty script does not work with the current tifffile version, as this requires imagecodecs.

This was solved by installing setting the numpy version to 1.16.4 (conda install numpy=1.16.4) and installing imagecodecs-lite (pip install imagecodecs-lite).

Thus these versions should be added/fixed in the conda environment.

(reported by @toobiwankenobi )