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dorado basecaller uses the flag -o twice once for output folder and once for overlap. Output folder can only be defined using --output-dir though.
Please provide a clear and concise description of the issue you are seeing and the result you expect.
dorado basecaller -o sample/ [email protected] .
gives
[2024-09-25 15:03:12.156] [error] Failed to parse 'a' as decimal integer: pattern 'a' not found
I guess it tries to convert the string to a number as it thinks it gets the overlap.
Issue Report
Please describe the issue:
dorado basecaller uses the flag -o twice once for output folder and once for overlap. Output folder can only be defined using --output-dir though.
Please provide a clear and concise description of the issue you are seeing and the result you expect.
dorado basecaller -o sample/ [email protected] .
gives
[2024-09-25 15:03:12.156] [error] Failed to parse 'a' as decimal integer: pattern 'a' not found
I guess it tries to convert the string to a number as it thinks it gets the overlap.
Steps to reproduce the issue:
Please list any steps to reproduce the issue.
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Logs
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