Re: [Samtools-help] fail to read header in v1.10, v1.11

[John M. <Joh...@gl...>]

On 10 Mar 2021, at 21:04, Remik Ziemlinski <rzi...@sn...> wrote:
> The attached file worked with version 1.9, but is failing with 1.10 and 1.11.  Is the file valid? Is there a regression after v1.9?
> [...]
> # output from version 1.9
> @HD VN:1.6 SO::unsorted
> @SQ    SN:reference    LN:5495

Your @HD line is delimited by spaces instead of tabs, which is invalid. The extra colon is not exactly helping either: it's syntactically valid and can be read in fine, but the value of ":unsorted" will be considered invalid by anything that actually looks at the SO value.

    John