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Re: Unannounced commits

On 12/28/22 16:06, Adam wrote:
I just discovered that biology/htslib and biology/samtools were upgraded without my knowledge immediately before the freeze.

revision 1.29
date: 2022-12-13 04:27:03 -0600;  author: adam;  state: Exp;  lines: +8 -10;  co
mmitid: CV8O1zaNSHQ7Qn5E;
htslib: updated to 1.16


In addition, biology/bcftools was *not* upgraded along with them and is now out of sync with htslib in the quarterly packages.

biology/kallisto also depends on htslib.  I see no discussion about this on the mailing lists, and I had no opportunity to test the v1.16 packages before they were committed, or retest kallisto with htslib 1.16.

Please consult with package maintainers before upgrading their packages.

I was planning to upgrade these packages shortly after the freeze to allow ample time for testing before they end up in a quarterly branch.

Did the update broke kallisto and bcftools?

Kind regards,

I don't know yet. It may be a few weeks before I can block the time to thoroughly test them. If I discover any issues at that time, I will let you know.

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