[Bug 1983255] [NEW] samtools-legacy misses 'Remove compressBound assertions' (PR #1258) fix

Launchpad Bug Tracker 1983255 at bugs.launchpad.net
Mon Aug 1 20:25:37 UTC 2022


You have been subscribed to a public bug by Ubuntu Foundations Team Bug Bot (crichton):

samtools-legacy is the source package for libbam-dev,
which is used by libbio-samtools-perl (autopkgtests),
that is for example triggered by a zlib update (proposed-transition).

zlib requires a fix for 'compressBound() returns an incorrect result on
z15' LP#1961427 that again requires the 'Remove compressBound
assertions' (PR #1258) fix in all bgzf.c implementations, like htslib,
bedtools or even samtools-legacy.

Problematic is that the code differs quite a bit from the one where the
PR#1258 was designed for and that is used in the htslib or bedtools
package (no bgzf_hopen - looks a bit out of date), so it does not apply
cleanly.

According to upstream 'https://github.com/lh3/samtools-legacy' the project
is "For testing only." and marked as "DON'T USE!" and it's last update
is from Nov 9, 2013.

** Affects: samtools-legacy (Ubuntu)
     Importance: High
         Status: In Progress


** Tags: kinetic patch s390x update-excuse
-- 
samtools-legacy misses 'Remove compressBound assertions' (PR #1258) fix
https://bugs.launchpad.net/bugs/1983255
You received this bug notification because you are a member of Ubuntu Sponsors Team, which is subscribed to the bug report.



More information about the Ubuntu-sponsors mailing list