Summary
MrBayes is a program for the Bayesian estimation of phylogeny. Bayesian inference of phylogeny is based upon a quantity called the posterior probability distribution of trees, which is the probability of a tree conditioned on the observations. The conditioning is accomplished using Bayes's theorem. The posterior probability distribution of trees is impossible to calculate analytically; instead, MrBayes uses a simulation technique called Markov chain Monte Carlo (or MCMC) to approximate the posterior probabilities of trees.
Versions
v3.2.7 :: 0 :: gentoo
- Modified
- License
- GPL-2
- Keywords
- ~amd64 ~amd64-linux ~ppc-macos ~x86 ~x86-linux
- USE flags
- debug mpi readline
v3.1.2-r2 :: 0 :: gentoo
- Modified
- License
- GPL-2
- Keywords
- ~amd64 ~amd64-linux ~ppc-macos ~x86 ~x86-linux
- USE flags
- debug mpi readline
USE flags
General
- debug
- Enable extra debug codepaths, like asserts and extra output. If you want to get meaningful backtraces see https://wiki.gentoo.org/wiki/Project:Quality_Assurance/Backtraces
- mpi
- Add MPI (Message Passing Interface) layer to the apps that support it
- readline
- Enable support for libreadline, a GNU line-editing library that almost everyone wants
Dependencies
sys-libs / ncurses : Console display library
sys-libs / readline : Another cute console display library
virtual / mpi : Virtual for Message Passing Interface (MPI) v2.0 implementation
Runtime Dependencies
sys-libs / ncurses : Console display library
sys-libs / readline : Another cute console display library
virtual / mpi : Virtual for Message Passing Interface (MPI) v2.0 implementation
Bugs
- 832184
- sci-biology/mrbayes-3.2.7 fails to compile: avxintrin.h:318:1: error: inlining failed in call to always_inline _mm256_mul_ps: target specific option mismatch
Change logs
- Repository mirror & CI · gentoo
Merge updates from master - Lucio Sauer · gentoo
*/*: inline mirror://sourceforge
bump copyright of touched ebuilds to 2024 Signed-off-by: Lucio Sauer <watermanpaint@posteo.net> Signed-off-by: Michał Górny <mgorny@gentoo.org> - Repository mirror & CI · gentoo
Merge updates from master - Fabian Groffen · gentoo
*/*: remove sparc-solaris keyword
Signed-off-by: Fabian Groffen <grobian@gentoo.org> - Repository mirror & CI · gentoo
Merge updates from master - Sam James · gentoo
sci-biology/mrbayes: [QA] fix tc-get* quoting
This can cause build problems for e.g. 32-bit (gcc -m32 ...) Signed-off-by: Sam James <sam@gentoo.org> - Repository mirror & CI · gentoo
Merge updates from master - Andrew Ammerlaan · gentoo
sci-biology/mrbayes: add version 3.2.7
Closes: https://bugs.gentoo.org/521510 Package-Manager: Portage-3.0.30, Repoman-3.0.3 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@gentoo.org> - Repository mirror & CI · gentoo
Merge updates from master - Jakov Smolic · gentoo
sci-biology/mrbayes: Port to EAPI 8
Signed-off-by: Jakov Smolic <jakov.smolic@sartura.hr> Signed-off-by: David Seifert <soap@gentoo.org> - Repository mirror & CI · gentoo
Merge updates from master - Sam James · gentoo
sci-biology/mrbayes: eutils->epatch
Package-Manager: Portage-3.0.14-prefix, Repoman-3.0.2 Signed-off-by: Sam James <sam@gentoo.org> - Repository mirror & CI · gentoo
Merge updates from master - David Seifert · gentoo
sci-biology/mrbayes: Remove old
Package-Manager: Portage-2.3.81, Repoman-2.3.20 Signed-off-by: David Seifert <soap@gentoo.org> - Robin H. Johnson · gentoo
Drop $Id$ per council decision in bug #611234.
Signed-off-by: Robin H. Johnson <robbat2@gentoo.org> - David Seifert · gentoo
sci-biology/mrbayes: Fix QA MissingSlotDep
Package-Manager: portage-2.2.28 - Robin H. Johnson · gentoo
proj/gentoo: Initial commit
This commit represents a new era for Gentoo: Storing the gentoo-x86 tree in Git, as converted from CVS. This commit is the start of the NEW history. Any historical data is intended to be grafted onto this point. Creation process: 1. Take final CVS checkout snapshot 2. Remove ALL ChangeLog* files 3. Transform all Manifests to thin 4. Remove empty Manifests 5. Convert all stale $Header$/$Id$ CVS keywords to non-expanded Git $Id$ 5.1. Do not touch files with -kb/-ko keyword flags. Signed-off-by: Robin H. Johnson <robbat2@gentoo.org> X-Thanks: Alec Warner <antarus@gentoo.org> - did the GSoC 2006 migration tests X-Thanks: Robin H. Johnson <robbat2@gentoo.org> - infra guy, herding this project X-Thanks: Nguyen Thai Ngoc Duy <pclouds@gentoo.org> - Former Gentoo developer, wrote Git features for the migration X-Thanks: Brian Harring <ferringb@gentoo.org> - wrote much python to improve cvs2svn X-Thanks: Rich Freeman <rich0@gentoo.org> - validation scripts X-Thanks: Patrick Lauer <patrick@gentoo.org> - Gentoo dev, running new 2014 work in migration X-Thanks: Michał Górny <mgorny@gentoo.org> - scripts, QA, nagging X-Thanks: All of other Gentoo developers - many ideas and lots of paint on the bikeshed