Your message dated Wed, 11 Dec 2024 18:31:20 +0000
with message-id <e1tlruw-00bz4s...@fasolo.debian.org>
and subject line Bug#1089656: Removed package(s) from unstable
has caused the Debian Bug report #1032975,
regarding igdiscover -- Broken, unusable package due to incomplete code in the
binary package
to be marked as done.
This means that you claim that the problem has been dealt with.
If this is not the case it is now your responsibility to reopen the
Bug report if necessary, and/or fix the problem forthwith.
(NB: If you are a system administrator and have no idea what this
message is talking about, this may indicate a serious mail system
misconfiguration somewhere. Please contact ow...@bugs.debian.org
immediately.)
--
1032975: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1032975
Debian Bug Tracking System
Contact ow...@bugs.debian.org with problems
--- Begin Message ---
Package: igdiscover
Version: 0.11-4
Severity: serious
Usertags: ftbfs-bookworm
Dear Maintainer,
igdiscover vendors just a /usr/bin/igdiscover with is supposed to be
nothing more than just a wrapper. The actual code is missing from the
binary package (i.e. the python files) effectively making igdiscover
useless.
Even after fixing that, igdiscover is still broken because of a broken
Snakefile and it is not able to run the pipeline/workflow which is the
main functionality here (it is a workflow tool).
Steps to check can be found here[1]. Remember to change merge tool to
'flash' (and apt-get install flash) before running `igdiscover run`.
It chokes at not being able to find "igblastn" -- it might be originatin
from ncbi-igblast.
I've fixed the first part (py files installation) and pushed changes to
salsa in a different branch here[2]. I do not have any more time to look
into it.
[1]: https://docs.igdiscover.se/en/stable/testing.html
[2]: https://salsa.debian.org/med-team/igdiscover/-/tree/bookworm-release
-- System Information:
Debian Release: bookworm/sid
APT prefers testing
APT policy: (500, 'testing')
Architecture: amd64 (x86_64)
Kernel: Linux 6.1.0-2-amd64 (SMP w/8 CPU threads; PREEMPT)
Locale: LANG=en_IN, LC_CTYPE=en_IN (charmap=UTF-8), LANGUAGE not set
Shell: /bin/sh linked to /usr/bin/dash
Init: systemd (via /run/systemd/system)
LSM: AppArmor: enabled
Versions of packages igdiscover depends on:
ii python3 3.11.1-2
pn python3-cutadapt <none>
pn python3-matplotlib <none>
ii python3-numpy 1:1.24.1-2+b1
pn python3-pandas <none>
pn python3-ruamel.yaml <none>
pn python3-scipy <none>
pn python3-seaborn <none>
pn python3-sqt <none>
pn python3-xopen <none>
igdiscover recommends no packages.
Versions of packages igdiscover suggests:
pn igdiscover-doc <none>
pn snakemake <none>
--- End Message ---
--- Begin Message ---
Version: 0.11-4+rm
Dear submitter,
as the package igdiscover has just been removed from the Debian archive
unstable we hereby close the associated bug reports. We are sorry
that we couldn't deal with your issue properly.
For details on the removal, please see https://bugs.debian.org/1089656
The version of this package that was in Debian prior to this removal
can still be found using https://snapshot.debian.org/.
Please note that the changes have been done on the master archive and
will not propagate to any mirrors until the next dinstall run at the
earliest.
This message was generated automatically; if you believe that there is
a problem with it please contact the archive administrators by mailing
ftpmas...@ftp-master.debian.org.
Debian distribution maintenance software
pp.
Thorsten Alteholz (the ftpmaster behind the curtain)
--- End Message ---
