Dedup errors if input BAM file is empty

[IanSudbery]

No description provided.

[TomSmithCGAT]

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

[IanSudbery]

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>

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On Thu, 7 Mar 2024 at 10:53, Tom Smith ***@***.***> wrote: For clarity, what *should* the behaviour be? A more useful error message? — Reply to this email directly, view it on GitHub <#624 (comment)>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/ABJELDQXFNVDF4J42E66CYTYXBBJPAVCNFSM6AAAAABCITJNECVHI2DSMVQWIX3LMV43OSLTON2WKQ3PNVWWK3TUHMYTSOBTGI2TIMJTGE> . You are receiving this because you authored the thread.Message ID: ***@***.***>