phyml_3.3.20190321-2_amd64.deb


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Description

phyml - Phylogenetic estimation using Maximum Likelihood

Property Value
Distribution Debian Sid
Repository Debian Main amd64
Package filename phyml_3.3.20190321-2_amd64.deb
Package name phyml
Package version 3.3.20190321
Package release 2
Package architecture amd64
Package type deb
Category biology::peptidic field::biology field::biology:bioinformatics implemented-in::c interface::commandline role::program science use::analysing use::comparing works-with::biological-sequence
Homepage http://www.atgc-montpellier.fr/phyml
License -
Maintainer Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Download size 1.70 MB
Installed size 6.28 MB

Alternatives

Package Version Architecture Repository
phyml_3.3.20190321-2_i386.deb 3.3.20190321 i386 Debian Main
phyml - - -

Requires

Name Value
libc6 >= 2.14
libopenmpi3 -
openmpi-bin -

Download

Type URL
Mirror ftp.br.debian.org
Binary Package phyml_3.3.20190321-2_amd64.deb
Source Package phyml

Install Howto

  1. Update the package index:
    # sudo apt-get update
  2. Install phyml deb package:
    # sudo apt-get install phyml

Files

Path
/usr/bin/phyml
/usr/bin/phyml-mpi
/usr/lib/phyml/bin/phyml
/usr/lib/phyml/bin/phyml-mpi
/usr/share/doc-base/phyml
/usr/share/doc/phyml/README.Debian
/usr/share/doc/phyml/changelog.Debian.gz
/usr/share/doc/phyml/copyright
/usr/share/doc/phyml/phyml_manual.pdf
/usr/share/doc/phyml/run-unit-test
/usr/share/doc/phyml/examples/example.nex
/usr/share/doc/phyml/examples/nexus_example.nxs
/usr/share/doc/phyml/examples/nucleic
/usr/share/doc/phyml/examples/proteic
/usr/share/doc/phyml/examples/lg4x/X1.mat
/usr/share/doc/phyml/examples/lg4x/X2.mat
/usr/share/doc/phyml/examples/lg4x/X3.mat
/usr/share/doc/phyml/examples/lg4x/X4.mat
/usr/share/doc/phyml/examples/lg4x/lg4x.xml
/usr/share/doc/phyml/examples/phyrex/h1n1.nxs
/usr/share/doc/phyml/examples/phyrex/usa_coord.txt
/usr/share/doc/phyml/examples/phytime/dating_example.xml
/usr/share/doc/phyml/examples/phytime/seq.txt
/usr/share/man/man1/phyml.1.gz

Changelog

2019-08-24 - Andreas Tille <tille@debian.org>
phyml (3:3.3.20190321-2) unstable; urgency=medium
* Fix autopkgtest
Closes: #935598
* Secure URI in copyright format
* Remove trailing whitespace in debian/changelog
* Remove obsolete fields Name, Contact from debian/upstream/metadata.
2019-08-01 - Andreas Tille <tille@debian.org>
phyml (3:3.3.20190321-1) unstable; urgency=medium
* New upstream version
* debhelper-compat 12
* Standards-Version: 4.4.0
* Do not run dh_dwz
2018-06-27 - Graham Inggs <ginggs@debian.org>
phyml (3:3.3.20180621-2) unstable; urgency=medium
* Team upload
[ Andreas Tille ]
* Install test script to user documentation
[ Graham Inggs ]
* Allow MPI oversubscription in autopkgtests
2018-06-26 - Andreas Tille <tille@debian.org>
phyml (3:3.3.20180621-1) unstable; urgency=medium
* New upstream version
* d/copyright: Do not exclude non-included files any more
* Use MPI_C to enable cross building (thanks for the patch to Helmut Grohne)
Closes: #902433
2018-04-27 - Andreas Tille <tille@debian.org>
phyml (3:3.3.20180214+dfsg-1) unstable; urgency=medium
[ Steffen Moeller ]
* debian/upstream/metadata: Added refs to registries
[ Andreas Tille ]
* New upstream version
* Point Vcs fields to salsa.debian.org
* Standards-Version: 4.1.4
* debhelper 11
* Fix file permissions of example files
2017-06-30 - Graham Inggs <ginggs@debian.org>
phyml (3:3.3.20170530+dfsg-2) unstable; urgency=medium
* Team upload
* Do not emit -march=native (Closes: #866139)
* Drop autopkgtest dependency on pocl-opencl-icd
2017-06-27 - Andreas Tille <tille@debian.org>
phyml (3:3.3.20170530+dfsg-1) unstable; urgency=medium
* New upstream version
* Upstream confirmed that beagle is not supported
* Standards-Version: 4.0.0 (no changes needed)
* Do not disable PIE
Closes: #865654
* Do not build phytime since it is not supported any more
2017-02-01 - Andreas Tille <tille@debian.org>
phyml (3:3.2.0+dfsg-7) unstable; urgency=medium
* Fix bug in wrapper script which really
Closes: #853738
2017-01-31 - Andreas Tille <tille@debian.org>
phyml (3:3.2.0+dfsg-6) unstable; urgency=medium
* Also provide version without beagle library since it causes trouble
on machines without according graphics hardware
Closes: #853737
* Provide link /usr/bin/phyml-beagle
* Enable to switch of MPI version via environment variable since there
are circumstances when it leads to wrong results
Closes: #853738
* Test single processor and MPI in autopkgtest
2017-01-30 - Andreas Tille <tille@debian.org>
phyml (3:3.2.0+dfsg-5) unstable; urgency=medium
* Fix wrapper to correctly use mpirun
Closes: #853211

See Also

Package Description
physamp_1.1.0-1_amd64.deb sample sequence alignment corresponding to phylogeny
physlock_13-1+b1_amd64.deb lightweight Linux console locking tool
phyutility_2.7.3+dfsg-2_amd64.deb simple analyses or modifications on both phylogenetic trees and data matrices
phyx_1.0+ds-1_amd64.deb UNIX-style phylogenetic analyses on trees and sequences
pi_1.3.4-5_amd64.deb Compute Archimedes' constant Pi to arbitrary precision
pia_3.106-1_amd64.deb movie player for xawtv
pianobar_2019.02.14-1+b1_amd64.deb console based player for Pandora radio
pianobooster_0.7.0-1_amd64.deb Learn the piano just by playing a game
picard-tools_2.18.25+dfsg-2_amd64.deb Command line tools to manipulate SAM and BAM files
picard_2.2.2-1_amd64.deb Next-Generation MusicBrainz audio files tagger
pick_2.0.2-1+b1_amd64.deb utility to choose one option from a set of choices
picmi_18.04.1-1_amd64.deb Number logic game
picocom_3.1-2+b1_amd64.deb minimal dumb-terminal emulation program
picolisp_19.6-2+b1_amd64.deb Lisp interpreter and application server framework
picosat_965-1_amd64.deb SAT solver with proof and core support
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