Your message dated Thu, 18 Dec 2025 09:52:39 +0100
with message-id <[email protected]>
and subject line Re: Britney fails to pin complete set in "Provides" api
transitions [Was: Bug#1010422: transition: r-api-bioc-3.15]
has caused the Debian Bug report #1011265,
regarding Britney fails to pin complete set in "Provides" api transitions [Was:
Bug#1010422: transition: r-api-bioc-3.15]
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1011265: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1011265
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--- Begin Message ---
Package: release.debian.org
User: [email protected]
Usertag: britney
Hi,
On 11-05-2022 12:34, Graham Inggs wrote:
Yes, please go ahead.
Tracker is at:
https://release.debian.org/transitions/html/r-api-bioc-3.15.html
There's three package still waiting for an upload, r-bioc-progeny,
r-bioc-monocle and r-bioc-scater. When is the ETA for those?
Apart from these missing uploads, there's a bunch of autopkgtest
regressions blocking the migration of the set [1]. I have a hunch that
quite some regressions are caused by missing *versioned* (test)
dependencies that cause incompatible sets to be tested. Thinking more
about it that could very well be a bug in our migration software failing
to properly handle the Provides which glues this all together and which
is uniquely provided by r-bioc-biocgenerics. Remember that our migration
software tries to determine the minimal (source based) set (deducted
from real package relations, i.e. Depends, Conflicts and Breaks) that
needs to come from unstable to be tested in testing. You can see which
source packages it deducted from the third line of each autopkgtest log.
E.g. [2] has:
--pin-packages=unstable=src:r-bioc-megadepth,src:r-bioc-biocgenerics
And than later:
The following packages have unmet dependencies:
r-bioc-rtracklayer : Depends: r-api-bioc-3.14
Depends: r-bioc-rsamtools (>= 1.31.2) but it is
not going to be installed
Depends: r-bioc-genomicalignments (>= 1.15.6) but
it is not going to be installed
I'll see if some manual addition pinning helps, but checking the status
in unstable may also be a good way to see what the status is. In the
mean time, this mail is also a bug report against britney, if the manual
pinning helps, we'll need to see how to improve it.
Paul
[1] https://people.debian.org/~elbrus/ci/regressions.html
[2]
https://ci.debian.net/data/autopkgtest/testing/amd64/r/r-bioc-megadepth/21776746/log.gz
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--- Begin Message ---
Hi,
On 5/19/22 09:40, Paul Gevers wrote:
Thinking more
about it that could very well be a bug in our migration software failing
to properly handle the Provides which glues this all together and which
is uniquely provided by r-bioc-biocgenerics.
I just deployed a fix for this. It became commit 5541ec3.
Paul
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