Debian 12 (Bookworm) native package

prime-phylo

bayesian estimation of gene trees taking the species tree into account

Packages / Debian 12 (Bookworm) / science / prime-phylo

Package: prime-phylo (1.0.11-10)

Maintainers:

Debian Med Packaging Team

External Resources:

Homepage: [prime.sbc.su.se]

bayesian estimation of gene trees taking the species tree into account

Other Packages Related to prime-phylo:

dep: [perl] [any]
Larry Wall's Practical Extraction and Report Language
dep: [libblas3]
Basic Linear Algebra Reference implementations, shared library
dep: libblas.so.3
Package not available
dep: [libboost-mpi1.74.0] (>= 1.74.0)
C++ interface to the Message Passing Interface (MPI)
dep: [libboost-serialization1.74.0] (>= 1.74.0)
serialization library for C++
dep: [libc6] (>= 2.29)
GNU C Library: Shared libraries
dep: [libgcc-s1] (>= 3.0)
GCC support library
dep: [liblapack3]
Library of linear algebra routines 3 - shared version
dep: liblapack.so.3
Package not available
dep: [libopenmpi3] (>= 4.1.0)
high performance message passing library -- shared library
dep: [libstdc++6] (>= 9)
GNU Standard C++ Library v3
dep: [libxml2] (>= 2.7.4)
GNOME XML library

sug: [njplot]
phylogenetic tree drawing program
sug: [treeviewx]
Displays and prints phylogenetic trees
sug: [muscle]
Multiple alignment program of protein sequences
sug: [probalign]
multiple sequence alignment using partition function posterior probabilities
sug: [mafft]
Multiple alignment program for amino acid or nucleotide sequences
sug: [python3-biopython]
Python3 library for bioinformatics
sug: [mrbayes]
Bayesian Inference of Phylogeny
sug: [phyml]
Phylogenetic estimation using Maximum Likelihood
sug: [raxml]
Randomized Axelerated Maximum Likelihood of phylogenetic trees

Download prime-phylo

Architecture	Package Size	Installed Size	Files
amd64	807 KiB	3.1 MiB	[list of files]
arm64	719 KiB	2.9 MiB	[list of files]

Package file paths (34)

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/chainsaw
/usr/bin/mcmc_analysis
/usr/bin/primeDLRS
/usr/bin/primeDTLSR
/usr/bin/primeGEM
/usr/bin/primeGSRf
/usr/bin/reconcile
/usr/bin/reroot
/usr/bin/showtree
/usr/bin/tree2leafnames
/usr/bin/treesize
/usr/lib/prime-phylo/libprime-phylo-sfile.so
/usr/lib/prime-phylo/libprime-phylo.so
/usr/share/doc/prime-phylo/changelog.Debian.gz
/usr/share/doc/prime-phylo/changelog.gz
/usr/share/doc/prime-phylo/copyright
/usr/share/doc/prime-phylo/examples/gse
/usr/share/doc/prime-phylo/examples/hostfile
/usr/share/doc/prime-phylo/examples/seqfile
/usr/share/doc/prime-phylo/examples/treefile
/usr/share/doc/prime-phylo/README
/usr/share/doc/prime-phylo/README.test
/usr/share/doc/prime-phylo/run-unit-test
/usr/share/man/man1/chainsaw.1.gz
/usr/share/man/man1/mcmc_analysis.1.gz
/usr/share/man/man1/primeDLRS.1.gz
/usr/share/man/man1/primeDTLSR.1.gz
/usr/share/man/man1/primeGEM.1.gz
/usr/share/man/man1/primeGSRf.1.gz
/usr/share/man/man1/reconcile.1.gz
/usr/share/man/man1/reroot.1.gz
/usr/share/man/man1/showtree.1.gz
/usr/share/man/man1/tree2leafnames.1.gz
/usr/share/man/man1/treesize.1.gz

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

Use this package

OpenFactory can boot this operating system in a browser VM, or start a build that includes the native package name from this record.

Try Debian 12 (Bookworm) in the browser Build an image that includes prime-phylo

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
1.0.11-10	bookworm / main	amd64	Debian 12 · main · amd64	807 KiB	3.1 MiB	pool/main/p/prime-phylo/prime-phylo_1.0.11-10_amd64.deb
1.0.11-10	bookworm / main	arm64	Debian 12 · main · arm64	719 KiB	2.9 MiB	pool/main/p/prime-phylo/prime-phylo_1.0.11-10_arm64.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.

1.0.11-10 / 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: 56c5381ed9d39790f33bda843361d3beff7f23bfaea8bf08260263fd7836945d

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

printf '%s  %s\n' '56c5381ed9d39790f33bda843361d3beff7f23bfaea8bf08260263fd7836945d' 'prime-phylo_1.0.11-10_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

1.0.11-10 / arm64Observed 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: 02159f2cc188649e026939899a16920d30fd993268c4733bca2110031da1a236

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

printf '%s  %s\n' '02159f2cc188649e026939899a16920d30fd993268c4733bca2110031da1a236' 'prime-phylo_1.0.11-10_arm64.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 arm64 revision bookworm-main-arm64:2ddb1737692e8c45c53e8d57c0ce4cd21c78c5703b830c3226b1423566a06c00

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, Debian 12 (Bookworm) main arm64 revision bookworm-main-arm64:2ddb1737692e8c45c53e8d57c0ce4cd21c78c5703b830c3226b1423566a06c00. 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
Debian 12 (Bookworm) main arm64Sep 1, 2026
Authoritative source; repository metadata signature verified, revision bookworm-main-arm64:2ddb1737692e8c45c53e8d57c0ce4cd21c78c5703b830c3226b1423566a06c00
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-arm64/Packages.xz
Expected SHA-256: 2ddb1737692e8c45c53e8d57c0ce4cd21c78c5703b830c3226b1423566a06c00
Observed SHA-256: 2ddb1737692e8c45c53e8d57c0ce4cd21c78c5703b830c3226b1423566a06c00
Result: match verified