John Marshall

In my opinion, a better solution for mainline bwa than either proposed PR would be for someone who cares to implement native ARM NEON versions of `ksw_u8()` and `ksw_i16()`. [This...

> And one can still use SIMDe as a fallback for non-X86, non-ARM SIMDe may be of interest to people such as Debian packagers who would like to have green...

@nh13: I've updated it to accept either:— hence it reads headers from `.hdr` if present, otherwise reads headers from `.dict` if that is present; (otherwise does the default thing). The...

Downstream analysis programs will expect paired reads to have identical QNAME values. So **something** is going to have to strip those `_forward` and `_reverse` suffixes. Your choices would be: *...

When this code was originally written, I investigated using the AWS SDK rather than the AWS protocol documentation. HTSlib is a C library used largely in environments without strong sysadmin...

…Or to get around to locally implementing IAM role parsing e.g. from a well-known endpoint, as discussed on #303. Implementing that is one of the reasons HTSlib acquired a JSON...

The relevant community thread is now https://github.com/orgs/community/discussions/6003 but, as with most issues reported to them, GitHub shows no inclination to address it. The assets list has moved between the top...

I agree that the main problem here is in GitHub's court, not HTSlib's, but there is part of https://github.com/samtools/htslib/issues/1260#issuecomment-2067536812 that IMHO could be usefully implemented by the release manager @daviesrob:...

See also #55. I agree with you though — it would be nice to have this option.

LDFLAGS naturally goes alongside CFLAGS, not at the end of the command.