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picard-tools

Command line tools to manipulate SAM and BAM files

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general
  • source: picard-tools (main)
  • version: 3.5.0+dfsg-1
  • maintainer: Debian Med Packaging Team (archive) (DMD) (LowNMU)
  • uploaders: Charles Plessy [DMD] – Vincent Danjean [DMD] – Steffen Moeller [DMD] – Olivier Sallou [DMD] – Pierre Gruet [DMD]
  • arch: all
  • std-ver: 4.7.4
  • VCS: Git (Browse, QA)
versions [more versions can be listed by madison] [old versions available from snapshot.debian.org]
[pool directory]
  • o-o-stable: 2.24.1+dfsg-1
  • oldstable: 2.27.5+dfsg-2
  • stable: 3.3.0+dfsg-2
  • testing: 3.4.0+dfsg-1
  • unstable: 3.5.0+dfsg-1
versioned links
  • 2.24.1+dfsg-1: [.dsc, use dget on this link to retrieve source package] [changelog] [copyright] [rules] [control]
  • 2.27.5+dfsg-2: [.dsc, use dget on this link to retrieve source package] [changelog] [copyright] [rules] [control]
  • 3.3.0+dfsg-2: [.dsc, use dget on this link to retrieve source package] [changelog] [copyright] [rules] [control]
  • 3.4.0+dfsg-1: [.dsc, use dget on this link to retrieve source package] [changelog] [copyright] [rules] [control]
  • 3.5.0+dfsg-1: [.dsc, use dget on this link to retrieve source package] [changelog] [copyright] [rules] [control]
binaries
  • libpicard-java
  • libpicard-java-doc
  • picard-tools
action needed
Marked for autoremoval on 29 August due to scala-asm: #1139484, #1142168 high
Version 3.4.0+dfsg-1 of picard-tools is marked for autoremoval from testing on Sat 29 Aug 2026. It is affected by #1139484. The removal of picard-tools will also cause the removal of (transitive) reverse dependencies: artemis, drop-seq, libgoby-java, paleomix. It depends (transitively) on scala-asm, affected by #1142168. You should try to prevent the removal by fixing these RC bugs.
Created: 2026-06-16 Last update: 2026-08-05 23:31
Fails to build during reproducibility testing normal
A package building reproducibly enables third parties to verify that the source matches the distributed binaries. It has been identified that this source package produced different results, failed to build or had other issues in a test environment. Please read about how to improve the situation!
Created: 2026-06-05 Last update: 2026-08-05 20:32
debian/patches: 2 patches to forward upstream low

Among the 13 debian patches available in version 3.5.0+dfsg-1 of the package, we noticed the following issues:

  • 2 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: 2026-08-05 00:00
testing migrations
  • excuses:
    • Migration status for picard-tools (3.4.0+dfsg-1 to 3.5.0+dfsg-1): Waiting for test results or another package, or too young (no action required now - check later)
    • Issues preventing migration:
    • ∙ ∙ Too young, only 2 of 5 days old
    • Additional info (not blocking):
    • ∙ ∙ Updating picard-tools will fix bugs in testing: #1139484
    • ∙ ∙ Piuparts tested OK - https://piuparts.debian.org/sid/source/p/picard-tools.html
    • ∙ ∙ Autopkgtest skipped on armhf: not installable (which is allowed)
    • ∙ ∙ Autopkgtest skipped on i386: not installable (which is allowed)
    • ∙ ∙ Autopkgtest skipped on loong64: not installable (which is allowed)
    • ∙ ∙ Autopkgtest skipped on ppc64el: not installable (which is allowed)
    • ∙ ∙ Autopkgtest skipped on riscv64: not installable (which is allowed)
    • ∙ ∙ Autopkgtest skipped on s390x: not installable (which is allowed)
    • ∙ ∙ Autopkgtest for picard-tools/3.5.0+dfsg-1: amd64: Pass, arm64: No tests, superficial or marked flaky ♻
    • ∙ ∙ Reproduced on amd64 - info
    • ∙ ∙ Reproduced on arm64 - info
    • ∙ ∙ Reproduced on armhf - info
    • ∙ ∙ Reproduced on i386 - info
    • Not considered
news
[rss feed]
  • [2026-08-04] Accepted picard-tools 3.5.0+dfsg-1 (source) into unstable (Pierre Gruet)
  • [2025-12-28] picard-tools 3.4.0+dfsg-1 MIGRATED to testing (Debian testing watch)
  • [2025-12-26] Accepted picard-tools 3.4.0+dfsg-1 (source) into unstable (Pierre Gruet)
  • [2025-02-06] picard-tools 3.3.0+dfsg-2 MIGRATED to testing (Debian testing watch)
  • [2025-02-05] picard-tools REMOVED from testing (Debian testing watch)
  • [2025-01-03] picard-tools 3.3.0+dfsg-2 MIGRATED to testing (Debian testing watch)
  • [2024-12-28] Accepted picard-tools 3.3.0+dfsg-2 (source) into unstable (Pierre Gruet)
  • [2024-12-26] Accepted picard-tools 3.3.0+dfsg-1 (source) into unstable (Pierre Gruet)
  • [2023-12-24] picard-tools 3.1.1+dfsg-1 MIGRATED to testing (Debian testing watch)
  • [2023-12-16] Accepted picard-tools 3.1.1+dfsg-1 (source) into unstable (Pierre Gruet)
  • [2023-07-11] picard-tools 3.0.0+dfsg-1 MIGRATED to testing (Debian testing watch)
  • [2023-07-05] Accepted picard-tools 3.0.0+dfsg-1 (source) into unstable (Pierre Gruet)
  • [2022-11-09] picard-tools 2.27.5+dfsg-2 MIGRATED to testing (Debian testing watch)
  • [2022-11-06] Accepted picard-tools 2.27.5+dfsg-2 (source) into unstable (Pierre Gruet)
  • [2022-11-04] Accepted picard-tools 2.27.5+dfsg-1 (source) into unstable (Pierre Gruet)
  • [2022-09-25] picard-tools 2.27.4+dfsg-1 MIGRATED to testing (Debian testing watch)
  • [2022-09-22] Accepted picard-tools 2.27.4+dfsg-1 (source) into unstable (Pierre Gruet)
  • [2022-07-12] picard-tools 2.27.2+dfsg-2 MIGRATED to testing (Debian testing watch)
  • [2022-07-07] Accepted picard-tools 2.27.2+dfsg-2 (source) into unstable (Pierre Gruet)
  • [2022-06-30] picard-tools 2.27.2+dfsg-1 MIGRATED to testing (Debian testing watch)
  • [2022-06-26] Accepted picard-tools 2.27.2+dfsg-1 (source) into unstable (Pierre Gruet)
  • [2022-04-26] picard-tools 2.27.1+dfsg-1 MIGRATED to testing (Debian testing watch)
  • [2022-04-24] Accepted picard-tools 2.27.1+dfsg-1 (source) into unstable (Pierre Gruet)
  • [2022-02-21] picard-tools 2.26.10+dfsg-1 MIGRATED to testing (Debian testing watch)
  • [2022-02-18] Accepted picard-tools 2.26.10+dfsg-1 (source) into unstable (Pierre Gruet)
  • [2021-12-10] picard-tools 2.26.6+dfsg-2 MIGRATED to testing (Debian testing watch)
  • [2021-12-04] Accepted picard-tools 2.26.6+dfsg-2 (source) into unstable (Pierre Gruet)
  • [2021-12-02] Accepted picard-tools 2.26.6+dfsg-1 (source) into unstable (Pierre Gruet)
  • [2021-01-30] picard-tools 2.24.1+dfsg-1 MIGRATED to testing (Debian testing watch)
  • [2021-01-28] Accepted picard-tools 2.24.1+dfsg-1 (source) into unstable (Andreas Tille)
  • 1
  • 2
bugs [bug history graph]
  • all: 0
links
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  • browse source code
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  • debci
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  • version: 3.4.0+dfsg-1

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