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# Copyright 2013-2024 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 Poamsa(MakefilePackage):
"""POA is Partial Order Alignment, a fast program for multiple sequence
alignment in bioinformatics. Its advantages are speed, scalability,
sensitivity, and the superior ability to handle branching / indels
in the alignment."""
homepage = "https://sourceforge.net/projects/poamsa"
url = "https://downloads.sourceforge.net/project/poamsa/poamsa/2.0/poaV2.tar.gz"
version("2.0", sha256="d98d8251af558f442d909a6527694825ef6f79881b7636cad4925792559092c2")
def url_for_version(self, version):
url = "https://downloads.sourceforge.net/project/poamsa/poamsa/{0}/poaV{1}.tar.gz"
return url.format(version.dotted, version.up_to(1))
def edit(self, spec, prefix):
filter_file(r"^(char \*Program_name;)", "extern \\1", "black_flag.h")
filter_file(r"^(char \*Program_version;)", "extern \\1", "black_flag.h")
def build(self, spec, prefix):
make("poa")
def install(self, spec, prefix):
mkdirp(prefix.bin)
mkdirp(prefix.lib)
install("poa", prefix.bin)
install("liblpo.a", prefix.lib)
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