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angelolab / ark-analysis

Integrated pipeline for multiplexed image analysis
https://ark-analysis.readthedocs.io/en/latest/
MIT License
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ValueError: Lists pixel som weights columns and pixel data columns ordered differently #1120

Closed janinemelsen closed 7 months ago

janinemelsen commented 7 months ago

After updating to the latest version from github, the ordering of the columns in the pixel som weights file differs from the ordering of the normalised data columns.

error: ' ValueError: Lists pixel som weights columns and pixel data columns ordered differently: values CD324 and Actin do not match at index 0'

Output of print(pixel_pysom.norm_data.columns.values) indeed differs from print(pixel_pysom.columns).

For now I solved it by providing a channel list in which the order is the same as in the normalised data.

cliu72 commented 7 months ago

Hi @janinemelsen! This should have been fixed in this pull request: https://github.com/angelolab/ark-analysis/pull/1114. Please pull the latest version (and make sure to install the newest version after pulling). Let us know if you still have issues!