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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 *
from spack.pkg.builtin.boost import Boost
class Hisea(MakefilePackage):
"""HISEA is an efficient all-vs-all long read aligner for SMRT sequencing
data. Its algorithm is designed to produce highest alignment sensitivity
among others."""
homepage = "https://doi.org/10.1186/s12859-017-1953-9"
license("GPL-3.0-only")
version(
"2017.12.26",
sha256="3c6ddfb8490a327cc5f9e45f64cd4312abc6ef5719661ce8892db8a20a1e9c5e",
url="https://github.com/lucian-ilie/HISEA/tarball/39e01e98caa0f2101da806ca59306296effe789c",
)
# TODO: replace this with an explicit list of components of Boost,
# for instance depends_on('boost +filesystem')
# See https://github.com/spack/spack/pull/22303 for reference
depends_on(Boost.with_default_variants)
def patch(self):
if self.spec.target.family == "aarch64":
filter_file("-mpopcnt", "", "Makefile")
def install(self, spec, prefix):
mkdirp(prefix.bin)
install("hisea", prefix.bin)
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