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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 Paml(MakefilePackage):
"""PAML is a package of programs for phylogenetic analyses of DNA or
protein sewuences using maximum likelihood."""
homepage = "http://abacus.gene.ucl.ac.uk/software/paml.html"
url = "https://github.com/abacus-gene/paml/archive/refs/tags/v4.10.0.tar.gz"
git = "https://github.com/abacus-gene/paml.git"
maintainers("snehring")
license("GPL-3.0-or-later")
version(
"4.10.3",
sha256="9b2a6e187e3f9f3bc55cd82db15eb701d43f031167d283a7c1b11c882b5d8a42",
url="https://github.com/abacus-gene/paml/archive/refs/tags/untagged-a5659203e8ec0ddb58b8.tar.gz",
)
version("4.10.0", sha256="6ef6a116f254185eb1cf7a2b975946fc9179a4b7dcb60a82f8fa8bbe6931897c")
version(
"4.9h",
sha256="623bf6cf4a018a4e7b4dbba189c41d6c0c25fdca3a0ae24703b82965c772edb3",
url="http://abacus.gene.ucl.ac.uk/software/SoftOld/paml4.9h.tgz",
)
build_directory = "src"
def install(self, spec, prefix):
mkdirp(prefix.bin)
with working_dir(self.build_directory):
install("baseml", prefix.bin)
install("basemlg", prefix.bin)
install("chi2", prefix.bin)
install("codeml", prefix.bin)
install("evolver", prefix.bin)
install("infinitesites", prefix.bin)
install("mcmctree", prefix.bin)
install("pamp", prefix.bin)
install("yn00", prefix.bin)
install_tree("dat", prefix.dat)
install_tree("Technical", prefix.Technical)
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