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CGATOxford / UMI-tools

Tools for handling Unique Molecular Identifiers in NGS data sets
MIT License
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Dedup errors if input BAM file is empty #624

Open IanSudbery opened 8 months ago

TomSmithCGAT commented 6 months ago

For clarity, what should the behaviour be? A more useful error message?

IanSudbery commented 6 months ago

I would say that a warning might be most obvious thing. I can see there might be times when umi_tools is in a pipeline, when it might be useful for it to be able to process empty files, just so as not to disrupt a pipeline where for e.g. one of the samples had all its reads filtered out.

Ian Sudbery (He/Him) Senior Lecturer in Bioinformatics, Sheffield Institute for Nucleic Acids, School of Biosciences, The University of Sheffield.

web: www.sudlab.co.uk Tel: 0114 222 2738 Twitter: IanSudbery Show Calendar Availability https://calendar.google.com/calendar/u/0?cid=aS5zdWRiZXJ5QHNoZWZmaWVsZC5hYy51aw

On Thu, 7 Mar 2024 at 10:53, Tom Smith @.***> wrote:

For clarity, what should the behaviour be? A more useful error message?

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