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bioperl-run

BioPerl wrappers: scripts

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general

source: bioperl-run (main)
version: 1.7.3-14
maintainer: Debian Med Packaging Team (archive) (DMD) (LowNMU)
uploaders: Andreas Tille [DMD] – Charles Plessy [DMD] – Étienne Mollier [DMD]
arch: all
std-ver: 4.7.3
VCS: Git (Browse, QA)

versions [more versions can be listed by madison] [old versions available from snapshot.debian.org]

[pool directory]

o-o-stable: 1.7.3-6
oldstable: 1.7.3-9
stable: 1.7.3-13
testing: 1.7.3-13
unstable: 1.7.3-14

versioned links

1.7.3-6: [.dsc, use dget on this link to retrieve source package] [changelog] [copyright] [rules] [control]
1.7.3-9: [.dsc, use dget on this link to retrieve source package] [changelog] [copyright] [rules] [control]
1.7.3-13: [.dsc, use dget on this link to retrieve source package] [changelog] [copyright] [rules] [control]
1.7.3-14: [.dsc, use dget on this link to retrieve source package] [changelog] [copyright] [rules] [control]

binaries

bioperl-run
libbio-perl-run-perl

action needed

Debci reports failed tests high

unstable: fail (log)
The tests ran in 0:06:26
Last run: 2026-03-12T08:21:55.000Z
Previous status: unknown

testing: pass (log)
The tests ran in 0:06:14
Last run: 2026-03-06T23:27:34.000Z
Previous status: unknown

stable: pass (log)
The tests ran in 0:08:12
Last run: 2025-11-10T01:14:27.000Z
Previous status: unknown

Created: 2026-03-12 Last update: 2026-03-13 13:04

Marked for autoremoval on 18 April due to ncbi-blast+: #1129866, #1129798 high

Version 1.7.3-13 of bioperl-run is marked for autoremoval from testing on Sat 18 Apr 2026. It is affected by #1129866. The removal of bioperl-run will also cause the removal of (transitive) reverse dependencies: libbio-tools-phylo-paml-perl, libbio-tools-run-alignment-clustalw-perl, libbio-tools-run-alignment-tcoffee-perl, psortb. It depends (transitively) on ncbi-blast+, affected by #1129798. You should try to prevent the removal by fixing these RC bugs.

Created: 2026-03-13 Last update: 2026-03-13 13:03

debian/patches: 20 patches to forward upstream low

Among the 22 debian patches available in version 1.7.3-14 of the package, we noticed the following issues:

20 patches where the metadata indicates that the patch has not yet been forwarded upstream. You should either forward the patch upstream or update the metadata to document its real status.

Created: 2023-02-26 Last update: 2026-03-10 09:00

testing migrations

excuses:
- Migration status for bioperl-run (1.7.3-13 to 1.7.3-14): BLOCKED: Rejected/violates migration policy/introduces a regression
- Issues preventing migration:
- ∙ ∙ Autopkgtest for bioperl-run/1.7.3-14: amd64: Regression ♻ (reference ♻), arm64: Regression ♻ (reference ♻), i386: Regression ♻ (reference ♻), ppc64el: Regression ♻ (reference ♻), riscv64: Regression ♻ (reference ♻), s390x: Regression ♻ (reference ♻)
- ∙ ∙ Too young, only 3 of 5 days old
- Additional info (not blocking):
- ∙ ∙ Updating bioperl-run will fix bugs in testing: #1129866
- ∙ ∙ Piuparts tested OK - https://piuparts.debian.org/sid/source/b/bioperl-run.html
- ∙ ∙ Reproduced on amd64
- ∙ ∙ Reproduced on arm64
- ∙ ∙ Reproduced on armhf
- ∙ ∙ Reproduced on i386
- ∙ ∙ Reproduced on ppc64el
- Not considered

news

[2026-03-09] Accepted bioperl-run 1.7.3-14 (source) into unstable (Étienne Mollier)
[2025-10-19] bioperl-run 1.7.3-13 MIGRATED to testing (Debian testing watch)
[2025-10-06] bioperl-run REMOVED from testing (Debian testing watch)
[2024-12-05] bioperl-run 1.7.3-13 MIGRATED to testing (Debian testing watch)
[2024-12-01] Accepted bioperl-run 1.7.3-13 (source) into unstable (Étienne Mollier)
[2024-11-23] bioperl-run 1.7.3-12 MIGRATED to testing (Debian testing watch)
[2024-11-20] Accepted bioperl-run 1.7.3-12 (source) into unstable (Étienne Mollier)
[2024-10-01] bioperl-run REMOVED from testing (Debian testing watch)
[2024-05-01] bioperl-run 1.7.3-11 MIGRATED to testing (Debian testing watch)
[2024-05-01] bioperl-run 1.7.3-11 MIGRATED to testing (Debian testing watch)
[2024-05-01] bioperl-run 1.7.3-11 MIGRATED to testing (Debian testing watch)
[2024-04-27] Accepted bioperl-run 1.7.3-11 (source) into unstable (Étienne Mollier)
[2024-03-12] Accepted bioperl-run 1.7.3-10 (source) into unstable (Étienne Mollier)
[2024-03-08] bioperl-run REMOVED from testing (Debian testing watch)
[2023-01-28] bioperl-run 1.7.3-9 MIGRATED to testing (Debian testing watch)
[2023-01-22] Accepted bioperl-run 1.7.3-9 (source) into unstable (Étienne Mollier)
[2022-02-13] bioperl-run 1.7.3-8 MIGRATED to testing (Debian testing watch)
[2022-02-10] Accepted bioperl-run 1.7.3-8 (source) into unstable (Étienne Mollier)
[2021-09-17] bioperl-run 1.7.3-7 MIGRATED to testing (Debian testing watch)
[2021-09-14] Accepted bioperl-run 1.7.3-7 (source) into unstable (Étienne Mollier)
[2021-01-09] bioperl-run 1.7.3-6 MIGRATED to testing (Debian testing watch)
[2021-01-06] Accepted bioperl-run 1.7.3-6 (source) into unstable (Étienne Mollier)
[2020-12-05] Accepted bioperl-run 1.7.3-5 (source) into unstable (Étienne Mollier) (signed by: Andreas Tille)
[2020-07-08] bioperl-run REMOVED from testing (Debian testing watch)
[2020-04-06] bioperl-run 1.7.3-4 MIGRATED to testing (Debian testing watch)
[2020-04-01] Accepted bioperl-run 1.7.3-4 (source) into unstable (Pranav Ballaney) (signed by: Andreas Tille)
[2020-01-18] bioperl-run 1.7.3-3 MIGRATED to testing (Debian testing watch)
[2020-01-13] Accepted bioperl-run 1.7.3-3 (source) into unstable (Michael R. Crusoe) (signed by: Andreas Tille)
[2020-01-05] Accepted bioperl-run 1.7.3-2 (source) into unstable (Andreas Tille)
[2019-11-30] bioperl-run 1.7.3-1 MIGRATED to testing (Debian testing watch)

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bugs [bug history graph]

all: 0

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