Lucas Czech

@ElDesalmado , same here, I am looking for this, and can't any information on how to implement this. Could anyone please point us to some example or explanation of this?...

Thanks for the suggestion, @Coderx7, but this is not what @ElDesalmado and I are looking for. Excluding other options has been part of CLI11 since its early days. What we...

Hm, the issue that I see there is that if the input data is not in fact compressed, the stream might not work as expected, because it then is supposed...

Makes sense. In that case, a simple workaround would be to have a little helper function that first opens the file and tries to find the magic bytes. If found,...

Thanks for the detailled answer! > For tags where Number > 1 the values are stored separated by commas and HTSlib makes no attempt to split them up. Thanks for...

Concrete proposal, with no changes to the established API - only adding new functionality: ```.cpp // ============================================================ // hts_log.h // ============================================================ // --------------------------------------------- // New: // --------------------------------------------- /// If set...

:+1: from my side. Would be nice if ``` ... log: "run-{attempt}.log" ... ``` worked.

Thanks @silastittes for mentioning my pipeline here! Indeed, it does not require known variants, and also offers a lot of other tools and settings. Maybe it helps @knokknok as well...

Thanks! I am also not actively using this pipeline here, as I'm developing my own that already fixes the issue, as stated above, so I won't have much time to...

> Does your workflow above follow the GATK best practices and do you actively maintain it? As far as I am aware, it does indeed implement the best practices. And...