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Expression matrix should be provided in the loom file format.[BUG]

Open bitcometz opened this issue 1 month ago • 1 comments

hello,

Describe the bug My shell:

pyscenic aucell \
    scenic.loom \
    reg.csv \
    --output pyscenic_output.loom \
    --num_workers 5

My log

2024-06-13 13:14:58,995 - pyscenic.cli.pyscenic - INFO - Loading expression matrix.

2024-06-13 13:15:01,551 - pyscenic.cli.pyscenic - INFO - Loading gene signatures.
Create regulons from a dataframe of enriched features.
Additional columns saved: []

2024-06-13 13:15:04,886 - pyscenic.cli.pyscenic - INFO - Calculating cellular enrichment.

2024-06-13 13:15:44,567 - pyscenic.cli.pyscenic - INFO - Writing results to file.

2024-06-13 13:18:18,668 - pyscenic.cli.pyscenic - ERROR - Expression matrix should be provided in the loom file format.

Based on the log of my execution results, it appears that I have run successfully. Why am I still getting error messages :

ERROR - Expression matrix should be provided in the loom file format.

Could you please help with this? Thanks !!!

bitcometz avatar Jun 13 '24 05:06 bitcometz