beast-mcmc_1.8.0-1_all.deb


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Description

beast-mcmc - Bayesian MCMC phylogenetic inference

Property Value
Distribution Debian 8 (Jessie)
Repository Debian Contrib i386
Package filename beast-mcmc_1.8.0-1_all.deb
Package name beast-mcmc
Package version 1.8.0
Package release 1
Package architecture all
Package type deb
Category contrib/science
Homepage http://beast.bio.ed.ac.uk/
License -
Maintainer Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Download size 4.49 MB
Installed size 8.61 MB
BEAST is a cross-platform program for Bayesian MCMC analysis of molecular
sequences. It is entirely orientated towards rooted, time-measured
phylogenies inferred using strict or relaxed molecular clock models. It
can be used as a method of reconstructing phylogenies but is also a
framework for testing evolutionary hypotheses without conditioning on a
single tree topology. BEAST uses MCMC to average over tree space, so that
each tree is weighted proportional to its posterior probability. Included
is a simple to use user-interface program for setting up standard
analyses and a suit of programs for analysing the results.

Alternatives

Package Version Architecture Repository
beast-mcmc_1.8.0-1_all.deb 1.8.0 all Debian Contrib
beast-mcmc - - -

Requires

Name Value
default-jre -
java6-runtime -
junit4 -
libcolt-java -
libcommons-math-java -
libhmsbeagle-java >= 1.1r1092
libitext1-java -
libjam-java -
libjdom1-java -
libjebl2-java -
libmpj-java -
libmtj-java -
libnucleotidelikelihoodcore0 >= 1.8.0-1

Download

Type URL
Mirror ftp.br.debian.org
Binary Package beast-mcmc_1.8.0-1_all.deb
Source Package beast-mcmc

Install Howto

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

Files

Path
/usr/bin/beast-mcmc
/usr/bin/beauti
/usr/bin/loganalyser
/usr/bin/logcombiner
/usr/bin/treeannotator
/usr/bin/treestat
/usr/share/beast-mcmc/beast.jar
/usr/share/beast-mcmc/beauti.jar
/usr/share/doc/beast-mcmc/README.test
/usr/share/doc/beast-mcmc/changelog.Debian.gz
/usr/share/doc/beast-mcmc/copyright
/usr/share/doc/beast-mcmc/run-unit-test
/usr/share/man/man1/beast-mcmc.1.gz
/usr/share/man/man1/beauti.1.gz
/usr/share/menu/beast-mcmc
/usr/share/pixmaps/beast-mcmc.xpm
/usr/share/pixmaps/beauti.xpm

Changelog

2014-09-30 - Andreas Tille <tille@debian.org>
beast-mcmc (1.8.0-1) unstable; urgency=medium
* New upstream version
* libnucleotidelikelihoodcore0: Architecture: amd64
* d/watch: Stick to 1.x series of beast-mcmc
* cme fix dpkg-control
* fix encoding issue
* Explicitly add multiarch library PATH to wrapper script to make sure
libhmsbeagle-jni will be found
* Add test but do not add autopkgtest control file for the moment
(since contrib is not tested anyway)
* Fix package description
Closes:  #716790
2013-05-30 - Andreas Tille <tille@debian.org>
beast-mcmc (1.7.5-1) unstable; urgency=low
* New upstream version
* Add debian/README.source explain why we stick to 1.7.x series for
the moment
2013-02-23 - Olivier Sallou <osallou@debian.org>
beast-mcmc (1.7.4-2) experimental; urgency=low
* Add copyright license info  for file (Closes: #698497).
- src/dr/math/matrixAlgebra/RobustSingularValueDecomposition.java
2012-12-17 - Andreas Tille <tille@debian.org>
beast-mcmc (1.7.4-1) experimental; urgency=low
* New upstream version (adapted patches)
* debian/{control,rules}: use default java implementation
thanks for the patch to James Page <james.page@ubuntu.com>
Closes: #683509
* debian/control:
- rename beast-mcmc-lib to libnucleotidelikelihoodcore0
- Standards-Version: 3.9.4 (no changes needed)
- do not depend from xterm any more
- versioned (Build-)Depends from libhmsbeagle-java
* Remove now unneeded lintian overrides
* debian/patches/create_soname.patch: Create soname for library
* debian/rules: silence pdflatex for better readable build logs
2012-07-06 - Andreas Tille <tille@debian.org>
beast-mcmc (1.6.2-3) unstable; urgency=low
* rename pixmap for menu to avoid name space conflict
Closes: #680483
2012-06-29 - Andreas Tille <tille@debian.org>
beast-mcmc (1.6.2-2) unstable; urgency=low
* debian/control: rename beast-doc to beast-mcmc-doc
Closes: #679394
For consistency reasons also rename beast-examples to
beast-mcmc-examples
2012-06-05 - Andreas Tille <tille@debian.org>
beast-mcmc (1.6.2-1) unstable; urgency=low
* Initial release. (Closes: #552101)

See Also

Package Description
bgoffice-dict-downloader_0.09_all.deb download dictionaries for gbgoffice
biomaj-watcher_1.2.2-2_all.deb biological data-bank updater - web interface
boinc-amd-opencl_7.4.23+dfsg-1+deb8u1_i386.deb metapackage for AMD/ATI OpenCL-savvy BOINC client and manager
boinc-nvidia-cuda_7.4.23+dfsg-1+deb8u1_i386.deb metapackage for CUDA-savvy BOINC client and manager
bumblebee-nvidia_3.2.1-7_i386.deb NVIDIA Optimus support using the proprietary NVIDIA driver
cbedic_4.0-3_i386.deb Text-mode Bulgarian/English Dictionary
chocolate-doom_2.1.0-1_i386.deb Doom engine closely-compatible with vanilla doom
cicero_0.7.2-3_all.deb French and English Text-To-Speech for MBROLA
cl-sql-oracle_6.5.0-1_all.deb CLSQL database backend, Oracle
cl-umlisp-orf_3.3.2-3_all.deb Common Lisp Unified Medical Language System Interface, ORF
cl-umlisp_2007ac.2-6_all.deb Common Lisp interface for the Unified Medical Language System
cpl-plugin-amber-calib_4.3.1+dfsg-1_all.deb ESO data reduction pipeline calibration data downloader for AMBER
cpl-plugin-fors-calib_5.0.0+dfsg-2_all.deb ESO data reduction pipeline calibration data downloader for FORS2
cpl-plugin-giraf-calib_2.12.1+dfsg-1_all.deb ESO data reduction pipeline calibration data downloader for GIRAFFE
cpl-plugin-kmos-calib_1.3.5+dfsg-1_all.deb ESO data reduction pipeline calibration data downloader for KMOS
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