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cortes-ciriano-lab / SComatic

A tool for detecting somatic variants in single cell data
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Issue while generating a custom PoN file #48

Open Swap90 opened 8 months ago

Swap90 commented 8 months ago

I am trying to create a custom PoN file by using a following command, however it outputs an error message about 'sort' without generating a PoN file. Could you please advise on this issue.

Command used: python scripts/PoN/PoN.py --in_tsv basecalling_step1_Control_TSVs.txt --out_file PoN_Controls_scRNAseq.tsv --rm_prefix No

  1. Building Panel Of Normals ...

sort: option requires an argument -- 'T' Try 'sort --help' for more information.

Total computing time: 4.66 seconds

zhoudreames commented 4 months ago

I have same problem, can you solve it ? thanks @Swap90

Francesc-Muyas commented 1 month ago

Dear users, Thanks for using SComatic. Did you try to check if you have your argument -T in the sort command? Could you try sort --help ?

Thanks