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bamtools

toolkit for manipulating BAM (genome alignment) files

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general
  • source: bamtools (main)
  • version: 2.5.3+dfsg-1
  • maintainer: Debian Med Packaging Team (archive) (DMD) (LowNMU)
  • uploaders: Andreas Tille [DMD] – Kevin Murray [DMD] – Michael R. Crusoe [DMD] – Étienne Mollier [DMD]
  • arch: all any
  • std-ver: 4.7.2
  • VCS: Git (Browse, QA)
versions [more versions can be listed by madison] [old versions available from snapshot.debian.org]
[pool directory]
  • o-o-stable: 2.5.1+dfsg-9
  • oldstable: 2.5.2+dfsg-4
  • stable: 2.5.2+dfsg-6
  • testing: 2.5.2+dfsg-6
  • unstable: 2.5.3+dfsg-1
versioned links
  • 2.5.1+dfsg-9: [.dsc, use dget on this link to retrieve source package] [changelog] [copyright] [rules] [control]
  • 2.5.2+dfsg-4: [.dsc, use dget on this link to retrieve source package] [changelog] [copyright] [rules] [control]
  • 2.5.2+dfsg-6: [.dsc, use dget on this link to retrieve source package] [changelog] [copyright] [rules] [control]
  • 2.5.3+dfsg-1: [.dsc, use dget on this link to retrieve source package] [changelog] [copyright] [rules] [control]
binaries
  • bamtools
  • libbamtools-dev
  • libbamtools-doc
  • libbamtools2.5.3
action needed
Marked for autoremoval on 27 October: #1112718 high
Version 2.5.2+dfsg-6 of bamtools is marked for autoremoval from testing on Mon 27 Oct 2025. It is affected by #1112718. The removal of bamtools will also cause the removal of (transitive) reverse dependencies: ariba, augustus, berkeley-express, covtobed, freebayes, lumpy-sv, reapr, sga, shovill, snippy, spades, transrate-tools, trinityrnaseq, unicycler. You should try to prevent the removal by fixing these RC bugs.
Created: 2025-09-26 Last update: 2025-09-29 15:33
debian/patches: 1 patch with invalid metadata high

Among the 3 debian patches available in version 2.5.3+dfsg-1 of the package, we noticed the following issues:

  • 1 patch with invalid metadata that ought to be fixed.
Created: 2023-02-26 Last update: 2025-09-28 10:33
testing migrations
  • This package is part of the ongoing testing transition known as auto-bamtools. Please avoid uploads unrelated to this transition, they would likely delay it and require supplementary work from the release managers. On the other hand, if your package has problems preventing it to migrate to testing, please fix them as soon as possible. You can probably find supplementary information in the debian-release archives or in the corresponding release.debian.org bug.
  • excuses:
    • Migration status for bamtools (2.5.2+dfsg-6 to 2.5.3+dfsg-1): Waiting for test results or another package, or too young (no action required now - check later)
    • Issues preventing migration:
    • ∙ ∙ Too young, only 1 of 2 days old
    • Additional info:
    • ∙ ∙ Updating bamtools will fix bugs in testing: #1112718
    • ∙ ∙ Piuparts tested OK - https://piuparts.debian.org/sid/source/b/bamtools.html
    • ∙ ∙ autopkgtest for bamtools/2.5.3+dfsg-1: amd64: Pass, arm64: Pass, i386: Pass, ppc64el: Pass, riscv64: Pass, s390x: Pass
    • ∙ ∙ Reproducible on amd64 - info ♻
    • ∙ ∙ Reproducible on arm64 - info ♻
    • ∙ ∙ Required age reduced by 3 days because of autopkgtest
    • Not considered
news
[rss feed]
  • [2025-09-27] Accepted bamtools 2.5.3+dfsg-1 (source amd64 all) into unstable (Debian FTP Masters) (signed by: Dominique Belhachemi)
  • [2024-07-14] bamtools 2.5.2+dfsg-6 MIGRATED to testing (Debian testing watch)
  • [2024-07-12] Accepted bamtools 2.5.2+dfsg-6 (source) into unstable (Andreas Tille)
  • [2023-12-18] bamtools 2.5.2+dfsg-5 MIGRATED to testing (Debian testing watch)
  • [2023-12-18] bamtools 2.5.2+dfsg-5 MIGRATED to testing (Debian testing watch)
  • [2023-12-15] Accepted bamtools 2.5.2+dfsg-5 (source) into unstable (Étienne Mollier)
  • [2022-12-22] bamtools 2.5.2+dfsg-4 MIGRATED to testing (Debian testing watch)
  • [2022-12-22] bamtools 2.5.2+dfsg-4 MIGRATED to testing (Debian testing watch)
  • [2022-12-19] Accepted bamtools 2.5.2+dfsg-4 (source) into unstable (Étienne Mollier)
  • [2022-12-04] bamtools 2.5.2+dfsg-3 MIGRATED to testing (Debian testing watch)
  • [2022-12-02] Accepted bamtools 2.5.2+dfsg-3 (source) into unstable (Andreas Tille)
  • [2022-09-05] bamtools 2.5.2+dfsg-2 MIGRATED to testing (Debian testing watch)
  • [2022-09-04] Accepted bamtools 2.5.2+dfsg-2 (source) into unstable (Andreas Tille) (signed by: Étienne Mollier)
  • [2022-09-04] Accepted bamtools 2.5.2+dfsg-1 (source amd64 all) into experimental, experimental (Debian FTP Masters) (signed by: Andreas Tille)
  • [2021-11-09] bamtools 2.5.1+dfsg-10 MIGRATED to testing (Debian testing watch)
  • [2021-11-06] Accepted bamtools 2.5.1+dfsg-10 (source) into unstable (Étienne Mollier)
  • [2021-04-21] bamtools 2.5.1+dfsg-9 MIGRATED to testing (Debian testing watch)
  • [2021-04-15] Accepted bamtools 2.5.1+dfsg-9 (source) into unstable (Andreas Tille)
  • [2021-01-29] bamtools 2.5.1+dfsg-8 MIGRATED to testing (Debian testing watch)
  • [2021-01-27] Accepted bamtools 2.5.1+dfsg-8 (source) into unstable (Andreas Tille)
  • [2020-05-31] bamtools 2.5.1+dfsg-7 MIGRATED to testing (Debian testing watch)
  • [2020-05-29] Accepted bamtools 2.5.1+dfsg-7 (source) into unstable (Andreas Tille)
  • [2020-05-29] bamtools 2.5.1+dfsg-6 MIGRATED to testing (Debian testing watch)
  • [2020-05-27] Accepted bamtools 2.5.1+dfsg-6 (source) into unstable (Andreas Tille)
  • [2019-12-16] bamtools 2.5.1+dfsg-5 MIGRATED to testing (Debian testing watch)
  • [2019-12-11] Accepted bamtools 2.5.1+dfsg-5 (source) into unstable (Andreas Tille)
  • [2018-04-11] bamtools 2.5.1+dfsg-3 MIGRATED to testing (Debian testing watch)
  • [2018-04-10] bamtools 2.5.1+dfsg-3 MIGRATED to testing (Debian testing watch)
  • [2018-04-05] Accepted bamtools 2.5.1+dfsg-3 (source) into unstable (Andreas Tille)
  • [2018-04-04] Accepted bamtools 2.5.1+dfsg-2 (source amd64 all) into unstable, unstable (Michael R. Crusoe) (signed by: Andreas Tille)
  • 1
  • 2
bugs [bug history graph]
  • all: 0
links
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  • version: 2.5.2+dfsg-6build1

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