Debian 13 (Trixie) native package

phyx

UNIX-style phylogenetic analyses on trees and sequences

Packages / Debian 13 (Trixie) / science / phyx

Package: phyx (1.3.2+ds-1)

Maintainers:

Debian Med Packaging Team

External Resources:

Homepage: [github.com]

UNIX-style phylogenetic analyses on trees and sequences

Other Packages Related to phyx:

dep: [libarmadillo14] (>= 1:14.0.1+dfsg)
streamlined C++ linear algebra library
dep: [libc6] (>= 2.38)
GNU C Library: Shared libraries
dep: [libgcc-s1] (>= 4.0)
GCC support library
dep: [libgomp1] (>= 4.9)
GCC OpenMP (GOMP) support library
dep: [libnlopt0] (>= 2.6.1)
nonlinear optimization library
dep: [libstdc++6] (>= 13.1)
GNU Standard C++ Library v3
dep: [python3]
interactive high-level object-oriented language (default python3 version)

Download phyx

Architecture	Package Size	Installed Size	Files
amd64	2.3 MiB	21 MiB	[list of files]
arm64	2.0 MiB	21 MiB	[list of files]

Caminhos de arquivo do pacote (176)

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/pxaa2cdn
/usr/bin/pxbdfit
/usr/bin/pxbdsim
/usr/bin/pxboot
/usr/bin/pxbp
/usr/bin/pxcat
/usr/bin/pxclsq
/usr/bin/pxcltr
/usr/bin/pxcolt
/usr/bin/pxcomp
/usr/bin/pxconsq
/usr/bin/pxcontrates
/usr/bin/pxfqfilt
/usr/bin/pxlog
/usr/bin/pxlssq
/usr/bin/pxlstr
/usr/bin/pxmono
/usr/bin/pxmrca
/usr/bin/pxmrcacut
/usr/bin/pxmrcaname
/usr/bin/pxnj
/usr/bin/pxnw
/usr/bin/pxpoly
/usr/bin/pxrecode
/usr/bin/pxrevcomp
/usr/bin/pxrls
/usr/bin/pxrlt
/usr/bin/pxrmk
/usr/bin/pxrms
/usr/bin/pxrmt
/usr/bin/pxrr
/usr/bin/pxs2fa
/usr/bin/pxs2nex
/usr/bin/pxs2phy
/usr/bin/pxseqgen
/usr/bin/pxssort
/usr/bin/pxsstat
/usr/bin/pxstrec
/usr/bin/pxsw
/usr/bin/pxt2new
/usr/bin/pxt2nex
/usr/bin/pxtcol
/usr/bin/pxtcomb
/usr/bin/pxtgen
/usr/bin/pxtlate
/usr/bin/pxtrt
/usr/bin/pxtscale
/usr/bin/pxupgma
/usr/bin/pxvcf2fa
/usr/share/doc-base/phyx.phyx
/usr/share/doc/phyx/changelog.Debian.gz
/usr/share/doc/phyx/copyright
/usr/share/doc/phyx/examples/manuscript_example/test0.fa
/usr/share/doc/phyx/examples/manuscript_example/test1.fa
/usr/share/doc/phyx/examples/manuscript_example/test2.fa
/usr/share/doc/phyx/examples/manuscript_example/test3.fa
/usr/share/doc/phyx/examples/manuscript_example/test4.fa
/usr/share/doc/phyx/examples/manuscript_example/test.fa
/usr/share/doc/phyx/examples/pxaa2cdn_example/ND6_aa.fa
/usr/share/doc/phyx/examples/pxaa2cdn_example/ND6_nuc.fa
/usr/share/doc/phyx/examples/pxbdfit_example/bd.tre
/usr/share/doc/phyx/examples/pxboot_example/Alignment
/usr/share/doc/phyx/examples/pxboot_example/parts
/usr/share/doc/phyx/examples/pxbp_example/bp_output
/usr/share/doc/phyx/examples/pxbp_example/Tree.tre
/usr/share/doc/phyx/examples/pxbpseq_example/out
/usr/share/doc/phyx/examples/pxbpseq_example/Sequences.fa
/usr/share/doc/phyx/examples/pxbpseq_example/ultra_100.tre
/usr/share/doc/phyx/examples/pxcat_example/Concat_Sequence1.fas
/usr/share/doc/phyx/examples/pxcat_example/Concat_Sequence1.phy
/usr/share/doc/phyx/examples/pxcat_example/Concat_Sequence2.fa
/usr/share/doc/phyx/examples/pxcat_example/Concat_Sequence2.phy
/usr/share/doc/phyx/examples/pxclsq_example/Alignment
/usr/share/doc/phyx/examples/pxconsq_example/Alignment
/usr/share/doc/phyx/examples/pxcontrates_example/contrates_file.txt
/usr/share/doc/phyx/examples/pxcontrates_example/contrates_tree.tre
/usr/share/doc/phyx/examples/pxfqfilt_example/fqfilt_test.fastq
/usr/share/doc/phyx/examples/pxlog_example/run1.trees
/usr/share/doc/phyx/examples/pxlog_example/run2.trees
/usr/share/doc/phyx/examples/pxlssq_example/Alignment
/usr/share/doc/phyx/examples/pxlstr_example/Tree.tre
/usr/share/doc/phyx/examples/pxmrcacut_example/mrca_test.tre
/usr/share/doc/phyx/examples/pxmrcacut_example/mrca.txt
/usr/share/doc/phyx/examples/pxmrcacut_example/out.txt
/usr/share/doc/phyx/examples/pxmrca_example/mrca_test.tre
/usr/share/doc/phyx/examples/pxmrca_example/mrca.txt
/usr/share/doc/phyx/examples/pxmrcaname_example/mrca_test.tre
/usr/share/doc/phyx/examples/pxmrcaname_example/mrca.txt
/usr/share/doc/phyx/examples/pxmrcaname_example/named_mrca.txt
/usr/share/doc/phyx/examples/pxnj_example/Alignment.aln
/usr/share/doc/phyx/examples/pxnw_examples/Alignment.aln
/usr/share/doc/phyx/examples/pxrecode_example/Nucleotide.fa
/usr/share/doc/phyx/examples/pxrevcomp_example/Nucleotide.fa
/usr/share/doc/phyx/examples/pxrls_example/newnames.txt
/usr/share/doc/phyx/examples/pxrls_example/oldnames.txt
/usr/share/doc/phyx/examples/pxrls_example/test.fa
/usr/share/doc/phyx/examples/pxrlt_example/kingdoms.newnames.txt
/usr/share/doc/phyx/examples/pxrlt_example/kingdoms.oldnames.txt
/usr/share/doc/phyx/examples/pxrlt_example/kingdoms.tre
/usr/share/doc/phyx/examples/pxrmk_example/knuckle_tree.tre
/usr/share/doc/phyx/examples/pxrms_example/Nucleotide.fa
/usr/share/doc/phyx/examples/pxrms_example/taxa_to_delete.txt
/usr/share/doc/phyx/examples/pxrmt_example/rmt_test.tre
/usr/share/doc/phyx/examples/pxrmt_example/taxa_to_delete.txt
/usr/share/doc/phyx/examples/pxrr_example/out.tre
/usr/share/doc/phyx/examples/pxrr_example/rr_test.tre
/usr/share/doc/phyx/examples/pxs2fa_pxs2phy_pxs2nex_example/Alignment
/usr/share/doc/phyx/examples/pxseqgen_example/goo.fa
/usr/share/doc/phyx/examples/pxseqgen_example/seqgen_test.tre
/usr/share/doc/phyx/examples/pxssort_example/Codon.fa
/usr/share/doc/phyx/examples/pxsstat_example/Bollback_2002_MBE.fa
/usr/share/doc/phyx/examples/pxstrec_example/config_stmap
/usr/share/doc/phyx/examples/pxstrec_example/out
/usr/share/doc/phyx/examples/pxstrec_example/test.data.narrow
/usr/share/doc/phyx/examples/pxstrec_example/test.tre
/usr/share/doc/phyx/examples/pxsw_example/Alignment.fa
/usr/share/doc/phyx/examples/pxt2new_example/Tree.nex
/usr/share/doc/phyx/examples/pxtlate_example/Sequence.fa
/usr/share/doc/phyx/examples/pxtrt_example/taxa_to_retain.txt
/usr/share/doc/phyx/examples/pxtrt_example/yule_100taxa.tre
/usr/share/doc/phyx/examples/pxtscale_example/ultra.tre
/usr/share/doc/phyx/examples/pxupgma_example/drosophila.aln
/usr/share/doc/phyx/examples/pxvcf2fa_example/vcf_file
/usr/share/doc/phyx/Phyxed_Manual.pdf
/usr/share/doc/phyx/README.test
/usr/share/doc/phyx/run-unit-test.gz
/usr/share/lintian/overrides/phyx
/usr/share/man/man1/pxaa2cdn.1.gz
/usr/share/man/man1/pxbdfit.1.gz
/usr/share/man/man1/pxbdsim.1.gz
/usr/share/man/man1/pxboot.1.gz
/usr/share/man/man1/pxbp.1.gz
/usr/share/man/man1/pxcat.1.gz
/usr/share/man/man1/pxclsq.1.gz
/usr/share/man/man1/pxcltr.1.gz
/usr/share/man/man1/pxcolt.1.gz
/usr/share/man/man1/pxcomp.1.gz
/usr/share/man/man1/pxconsq.1.gz
/usr/share/man/man1/pxcontrates.1.gz
/usr/share/man/man1/pxfqfilt.1.gz
/usr/share/man/man1/pxlog.1.gz
/usr/share/man/man1/pxlssq.1.gz
/usr/share/man/man1/pxlstr.1.gz
/usr/share/man/man1/pxmono.1.gz
/usr/share/man/man1/pxmrca.1.gz
/usr/share/man/man1/pxmrcacut.1.gz
/usr/share/man/man1/pxmrcaname.1.gz
/usr/share/man/man1/pxnj.1.gz
/usr/share/man/man1/pxnw.1.gz
/usr/share/man/man1/pxpoly.1.gz
/usr/share/man/man1/pxrecode.1.gz
/usr/share/man/man1/pxrevcomp.1.gz
/usr/share/man/man1/pxrls.1.gz
/usr/share/man/man1/pxrlt.1.gz
/usr/share/man/man1/pxrmk.1.gz
/usr/share/man/man1/pxrms.1.gz
/usr/share/man/man1/pxrmt.1.gz
/usr/share/man/man1/pxrr.1.gz
/usr/share/man/man1/pxs2fa.1.gz
/usr/share/man/man1/pxs2nex.1.gz
/usr/share/man/man1/pxs2phy.1.gz
/usr/share/man/man1/pxseqgen.1.gz
/usr/share/man/man1/pxssort.1.gz
/usr/share/man/man1/pxsstat.1.gz
/usr/share/man/man1/pxstrec.1.gz
/usr/share/man/man1/pxsw.1.gz
/usr/share/man/man1/pxt2new.1.gz
/usr/share/man/man1/pxt2nex.1.gz
/usr/share/man/man1/pxtcol.1.gz
/usr/share/man/man1/pxtcomb.1.gz
/usr/share/man/man1/pxtgen.1.gz
/usr/share/man/man1/pxtlate.1.gz
/usr/share/man/man1/pxtrt.1.gz
/usr/share/man/man1/pxtscale.1.gz
/usr/share/man/man1/pxupgma.1.gz
/usr/share/man/man1/pxvcf2fa.1.gz

Field source: Debian 13 (Trixie) main amd64 revision trixie-main-amd64:3ab4e811cf4f3e5a335d382c58cc19d85f1abe7a4ef4689160ca1f637fa0e9b3

Usar este pacote

O OpenFactory pode iniciar este sistema operacional em uma máquina virtual do navegador, ou começar uma construção que inclui o nome nativo do pacote deste registro.

Experimentar Debian 13 (Trixie) no navegador Construir uma imagem que inclui phyx

Versões, suites e repositórios

Cada linha é metadado do índice de pacotes para uma versão, arquitetura, suite e repositório. Nomes, URLs e tamanhos vêm da fonte; um link é um ponto de obtenção mutável, não uma redistribuição da OpenFactory.

Version	Release	Architecture	Repository	Package size	Installed size	Publisher repository artifact
1.3.2+ds-1	trixie / main	amd64	Debian 13 · main · amd64	2.3 MiB	21 MiB	pool/main/p/phyx/phyx_1.3.2+ds-1_amd64.deb
1.3.2+ds-1	trixie / main	arm64	Debian 13 · main · arm64	2.0 MiB	21 MiB	pool/main/p/phyx/phyx_1.3.2+ds-1_arm64.deb

Field source: Debian 13 (Trixie) main amd64 revision trixie-main-amd64:3ab4e811cf4f3e5a335d382c58cc19d85f1abe7a4ef4689160ca1f637fa0e9b3

Checksums e datas de observação

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.

1.3.2+ds-1 / 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: 0ad9ad16769bc05ad561d8f442da0d62f6b6b5e9162d34c03d68c1c92cabc49a

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

printf '%s  %s\n' '0ad9ad16769bc05ad561d8f442da0d62f6b6b5e9162d34c03d68c1c92cabc49a' 'phyx_1.3.2+ds-1_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 13 (Trixie) main amd64 revision trixie-main-amd64:3ab4e811cf4f3e5a335d382c58cc19d85f1abe7a4ef4689160ca1f637fa0e9b3

1.3.2+ds-1 / 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: 617170fad4e8ff214110a6fab2f444123fc9cefc7f53d7e0b2da63729a3372a6

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

printf '%s  %s\n' '617170fad4e8ff214110a6fab2f444123fc9cefc7f53d7e0b2da63729a3372a6' 'phyx_1.3.2+ds-1_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 13 (Trixie) main arm64 revision trixie-main-arm64:753da751bbc7a679f48bd1b623ffd4479cb6861c426118284c76eb82909e4908

Completude do registro

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 13 (Trixie) main amd64 revision trixie-main-amd64:3ab4e811cf4f3e5a335d382c58cc19d85f1abe7a4ef4689160ca1f637fa0e9b3, Debian 13 (Trixie) main arm64 revision trixie-main-arm64:753da751bbc7a679f48bd1b623ffd4479cb6861c426118284c76eb82909e4908. The cross-OS mapping is catalog-derived from the source-reported homepage; it does not establish authorship or publisher identity

Fontes e proveniência

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 13 (Trixie) main amd64Sep 1, 2026
Authoritative source; repository metadata signature verified, revision trixie-main-amd64:3ab4e811cf4f3e5a335d382c58cc19d85f1abe7a4ef4689160ca1f637fa0e9b3
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/trixie/InRelease
Signed-object SHA-256
98b25b5cd185c59d34aa6e4c3e9b5b8f01bbe9d104fe2dcfbcd30dc0a14a59ed
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: 3ab4e811cf4f3e5a335d382c58cc19d85f1abe7a4ef4689160ca1f637fa0e9b3
Observed SHA-256: 3ab4e811cf4f3e5a335d382c58cc19d85f1abe7a4ef4689160ca1f637fa0e9b3
Result: match verified
Debian 13 (Trixie) main arm64Sep 1, 2026
Authoritative source; repository metadata signature verified, revision trixie-main-arm64:753da751bbc7a679f48bd1b623ffd4479cb6861c426118284c76eb82909e4908
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/trixie/InRelease
Signed-object SHA-256
98b25b5cd185c59d34aa6e4c3e9b5b8f01bbe9d104fe2dcfbcd30dc0a14a59ed
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: 753da751bbc7a679f48bd1b623ffd4479cb6861c426118284c76eb82909e4908
Observed SHA-256: 753da751bbc7a679f48bd1b623ffd4479cb6861c426118284c76eb82909e4908
Result: match verified