Debian 12 (Bookworm) native package

gubbins

phylogenetic analysis of genome sequences

Packages / Debian 12 (Bookworm) / science / gubbins

Package: gubbins (2.4.1-5)

Maintainers:

Debian Med Packaging Team

External Resources:

Homepage: [sanger-pathogens.github.io]

phylogenetic analysis of genome sequences

Other Packages Related to gubbins:

dep: [libc6] (>= 2.29)
GNU C Library: Shared libraries
dep: [zlib1g] (>= 1:1.1.4)
compression library - runtime
dep: [python3-biopython]
Python3 library for bioinformatics
dep: [python3-dendropy]
DendroPy Phylogenetic Computing Library (Python 3)
dep: [python3] [any]
interactive high-level object-oriented language (default python3 version)
dep: [python3]
interactive high-level object-oriented language (default python3 version)
dep: [raxml]
Randomized Axelerated Maximum Likelihood of phylogenetic trees

rec: [iqtree]
efficient phylogenetic software by maximum likelihood
rec: [fasttree]
phylogenetic trees from alignments of nucleotide or protein sequences

Download gubbins

Architecture	Package Size	Installed Size	Files
amd64	57 KiB	235 KiB	[list of files]

Package file paths (38)

Paths come from the repository package-file index for the observed builds. They describe archive/package associations, not every file that will exist on a running system after maintainer scripts, alternatives, generated state, diversions, or installation choices.

/usr/bin/gubbins_drawer
/usr/bin/run_gubbins
/usr/lib/gubbins/gubbins
/usr/lib/x86_64-linux-gnu/libgubbins.so
/usr/lib/x86_64-linux-gnu/libgubbins.so.0
/usr/lib/x86_64-linux-gnu/libgubbins.so.0.0.1
/usr/share/doc/gubbins/changelog.Debian.gz
/usr/share/doc/gubbins/changelog.gz
/usr/share/doc/gubbins/copyright
/usr/share/gubbins/gubbins-2.4.1.egg-info/dependency_links.txt
/usr/share/gubbins/gubbins-2.4.1.egg-info/entry_points.txt
/usr/share/gubbins/gubbins-2.4.1.egg-info/PKG-INFO
/usr/share/gubbins/gubbins-2.4.1.egg-info/requires.txt
/usr/share/gubbins/gubbins-2.4.1.egg-info/top_level.txt
/usr/share/gubbins/gubbins/common.py
/usr/share/gubbins/gubbins/__init__.py
/usr/share/gubbins/gubbins/PreProcessFasta.py
/usr/share/gubbins/gubbins/tests/__init__.py
/usr/share/gubbins/gubbins/tests/test_alignment_python_methods.py
/usr/share/gubbins/gubbins/tests/test_converging_recombinations.py
/usr/share/gubbins/gubbins/tests/test_dependencies.py
/usr/share/gubbins/gubbins/tests/test_pre_process_fasta.py
/usr/share/gubbins/gubbins/tests/test_treebuilders.py
/usr/share/gubbins/gubbins/tests/test_tree_methods.py
/usr/share/gubbins/gubbins/tests/test_utils.py
/usr/share/gubbins/gubbins/tests/test_validate_fasta_input.py
/usr/share/gubbins/gubbins/tests/test_validate_starting_tree.py
/usr/share/gubbins/gubbins/treebuilders.py
/usr/share/gubbins/gubbins/utils.py
/usr/share/gubbins/gubbins/ValidateFastaAlignment.py
/usr/share/gubbins/run_gubbins.py
/usr/share/gubbins/scripts/gubbins_drawer.py
/usr/share/gubbins/scripts/__init__.py
/usr/share/gubbins/scripts/run_gubbins.py
/usr/share/lintian/overrides/gubbins
/usr/share/man/man1/gubbins_drawer.1.gz
/usr/share/man/man1/run_gubbins.1.gz
/usr/share/python3/runtime.d/gubbins.rtupdate

Field source: Debian 12 (Bookworm) main amd64 revision bookworm-main-amd64:9e0b5aabb2465b3d2e7a7fe27f9913846277833f7a2826e7767acccff5b588c5

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Versions, suites, and repositories

Each row is recorded package-index metadata for one version, architecture, suite, and repository. Names, URLs, and sizes are source-reported; a link is a potentially mutable retrieval location, not an OpenFactory redistribution claim or proof that OpenFactory retained the artifact bytes.

Version	Release	Architecture	Repository	Package size	Installed size	Publisher repository artifact
2.4.1-5	bookworm / main	amd64	Debian 12 · main · amd64	57 KiB	235 KiB	pool/main/g/gubbins/gubbins_2.4.1-5_amd64.deb

Field source: Debian 12 (Bookworm) main amd64 revision bookworm-main-amd64:9e0b5aabb2465b3d2e7a7fe27f9913846277833f7a2826e7767acccff5b588c5

Checksums and observation dates

For an APT source, signature verification authenticates the repository metadata chain and the Packages index containing this source-reported artifact digest. It does not certify package safety.

2.4.1-5 / amd64Observed Sep 1, 2026 to Sep 1, 2026

Verification status: Metadata observed; artifact bytes were not independently fetched or hashed by this catalog import. The digest below is source-reported.

Source-reported sha256: cc4526717665459fb5d7149e8f5187a3fd441581a10016a7c55ec7d1e355d57f

After downloading that exact artifact, compare its bytes with the source-reported expected digest:

printf '%s  %s\n' 'cc4526717665459fb5d7149e8f5187a3fd441581a10016a7c55ec7d1e355d57f' 'gubbins_2.4.1-5_amd64.deb' | sha256sum --check --strict -

A match establishes equality with the repository metadata value. It does not establish safety or catalog-side artifact retrieval.

Field source: Debian 12 (Bookworm) main amd64 revision bookworm-main-amd64:9e0b5aabb2465b3d2e7a7fe27f9913846277833f7a2826e7767acccff5b588c5

Catalog record completeness

The completeness score measures metadata coverage, not software quality, security, compatibility, or suitability.

Summary and description: 25/25
Artifact path and source digest: 25/25
Dependency metadata: 15/15
Package-file index: 15/15
Homepage: 5/5
License text: 0/5
Source package or maintainer: 10/10

Recorded total: 95/100

Field source: Debian 12 (Bookworm) main amd64 revision bookworm-main-amd64:9e0b5aabb2465b3d2e7a7fe27f9913846277833f7a2826e7767acccff5b588c5. The cross-OS mapping is catalog-derived from the source-reported homepage; it does not establish authorship or publisher identity

Sources and provenance

Field-source links above resolve here. Each source entry names the metadata publisher, trust tier, exact snapshot revision, signature result, and observation time; catalog-derived mappings are labeled separately.

Debian 12 (Bookworm) main amd64Sep 1, 2026
Authoritative source; repository metadata signature verified, revision bookworm-main-amd64:9e0b5aabb2465b3d2e7a7fe27f9913846277833f7a2826e7767acccff5b588c5
Signature verification covers the configured repository metadata chain. It does not certify that the package is safe or suitable.
Repository-signature verification record
Signed object
https://deb.debian.org/debian/dists/bookworm/InRelease
Signed-object SHA-256
77737fa4b34f2693e982cc9ee35736816c35a7778fc2d326cc1bbf5b301fe1aa
Signer fingerprint
4CB50190207B4758A3F73A796ED0E7B82643E131
Keyring revision
debian-archive-keyring.gpg
SHA-256 506b815cbb32d9b6066b4a2aa524071e071761e7e7f68c3ac74f3061ba852017
Tool and policy
gpgv (GnuPG) 2.4.9
openfactory-software-catalog-signature-v1
Verification time
Sep 1, 2026
Signed Release → package-index hash linkage
Path: main/binary-amd64/Packages.xz
Expected SHA-256: 9e0b5aabb2465b3d2e7a7fe27f9913846277833f7a2826e7767acccff5b588c5
Observed SHA-256: 9e0b5aabb2465b3d2e7a7fe27f9913846277833f7a2826e7767acccff5b588c5
Result: match verified