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# -*- coding: utf-8; mode: tcl; tab-width: 4; indent-tabs-mode: nil; c-basic-offset: 4 -*- vim:fenc=utf-8:ft=tcl:et:sw=4:ts=4:sts=4
PortSystem 1.0
PortGroup compiler_blacklist_versions 1.0
PortGroup cxx11 1.1
PortGroup github 1.0
github.setup bredelings BAli-Phy 3.0.3
name bali-phy
revision 0
description Estimation of phylogeny and multiple alignment via MCMC
long_description Estimation of phylogeny and multiple alignment via MCMC \
BAli-Phy that estimates multiple sequence alignments and \
evolutionary trees from DNA, amino acid, or codon sequences.\
BAli-Phy uses MCMC and Bayesian methods to estimate \
evolutionary trees, positive selection, and branch lengths \
while averaging over alternative alignments. \
\
BAli-Phy can also estimate phylogenies from a fixed \
alignment (like MrBayes and BEAST) using substitution \
models like GTR+gamma. BAli-Phy automatically estimates \
relative rates for each gene.
categories science
platforms darwin
license GPL-2+
maintainers {gmail.com:benjamin.redelings @bredelings} openmaintainer
homepage http://www.bali-phy.org/
checksums rmd160 60c6b2da4f196f68b958e3360f9415fb689729bc \
sha256 4cdfb16b50c4a06e1cf6691d22cc3a5401e0cdb55dbb0ff379c779eb660e060d \
size 12455696
depends_build-append \
port:pkgconfig \
port:automake \
port:autoconf \
port:libtool \
port:eigen3
depends_lib port:boost \
path:lib/pkgconfig/cairo.pc:cairo
patchfiles scripts.patch
# Needs support for -std=c++14.
compiler.blacklist-append \
{clang < 602}
# build in source directory until we switch to meson
pre-configure { system -W ${worksrcpath} "./bootstrap.sh"}
configure.args --with-system-boost --with-system-eigen
configure.env-append \
BOOST_SUFFIX=-mt