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# Copyright 2013-2023 Lawrence Livermore National Security, LLC and other
# Spack Project Developers. See the top-level COPYRIGHT file for details.
#
# SPDX-License-Identifier: (Apache-2.0 OR MIT)
from spack.package import *
class SeqGen(MakefilePackage):
"""Seq-Gen is a program that will simulate the evolution of nucleotide or
amino acid sequences along a phylogeny.
Seq-Gen is a program that will simulate the evolution of nucleotide or
amino acid sequences along a phylogeny, using common models of the
substitution process. A range of models of molecular evolution are implemented
including the general reversible model. State frequencies and other parameters
of the model may be given and site-specific rate heterogeneity may also be
incorporated in a number of ways. Any number of trees may be read in and the
program will produce any number of data sets for each tree. Thus large sets of
replicate simulations can be easily created. It has been designed to be a
general purpose simulator that incorporates most of the commonly used (and
computationally tractable) models of molecular sequence evolution."""
homepage = "http://tree.bio.ed.ac.uk/software/Seq-Gen/"
url = "https://github.com/rambaut/Seq-Gen/archive/refs/tags/1.3.4.tar.gz"
version("1.3.4", sha256="092ec2255ce656a02b2c3012c32443c7d8e38c692f165fb155b304ca030cbb59")
build_directory = "source"
def install(self, spec, prefix):
mkdir(prefix.bin)
install("source/seq-gen", prefix.bin)
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