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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 Mlst(Package):
"""Scan contig files against traditional PubMLST typing schemes"""
homepage = "https://github.com/tseemann/mlst"
url = "https://github.com/tseemann/mlst/archive/refs/tags/v2.22.1.tar.gz"
license("GPL-2.0-only")
version("2.23.0", sha256="35bdbde309ba25293c3cce417d82e79594b9f78365133062923dc3d629bd8846")
version("2.22.1", sha256="a8f64d7cb961a8e422e96a19309ad8707f8792d9f755a9e5a1f5742986d19bca")
depends_on("perl@5.26:", type="run")
depends_on("perl-moo", type="run")
depends_on("perl-list-moreutils", type="run")
depends_on("perl-json", type="run")
depends_on("perl-file-which", type="run")
depends_on("blast-plus@2.9.0:", type="run")
depends_on("any2fasta", type="run")
# dependencies for scripts
depends_on("parallel", type="run")
depends_on("curl", type="run")
def install(self, spec, prefix):
mkdirp(prefix.bin)
mkdirp(prefix.db)
mkdirp(prefix.perl5)
install_tree("bin", prefix.bin)
install_tree("scripts", prefix.bin)
install_tree("db", prefix.db)
install_tree("perl5", prefix.perl5)
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