Re: [Samtools-help] Samtools view -X

[John M. <jm...@sa...>]

On 25 Sep 2014, at 16:29, Nils Homer <nh...@br...> wrote:
> I see that the "samtools view -X" option is missing.  This option is incredibly useful for debugging SAM/BAM (and now CRAM) records.  It seems that this option was lost in the newest release.  Would it be possible to add that back in?

The hex/symbolic flags functionality wasn't offered by htslib's sam_write1(), so this functionality disappeared with the move to htslib.  Yes, we're planning to bring it back as time permits.

    John

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