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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 glob import glob
from spack.package import *
class Cdhit(MakefilePackage):
"""CD-HIT is a very widely used program for clustering and comparing
protein or nucleotide sequences."""
homepage = "http://cd-hit.org/"
url = "https://github.com/weizhongli/cdhit/archive/V4.6.8.tar.gz"
license("GPL-2.0-only")
version("4.8.1", sha256="f8bc3cdd7aebb432fcd35eed0093e7a6413f1e36bbd2a837ebc06e57cdb20b70")
version("4.6.8", sha256="37d685e4aa849314401805fe4d4db707e1d06070368475e313d6f3cb8fb65949")
maintainers("snehring")
variant("openmp", default=True, description="Compile with multi-threading support")
variant("zlib", default=True, description="Compile with zlib")
depends_on("perl", type=("build", "run"))
depends_on("perl-text-nsp", type="run")
depends_on("zlib-api", when="+zlib", type="link")
def patch(self):
for f in glob("*.pl"):
filter_file("^#!/usr/bin/perl.*$", "#!/usr/bin/env perl", f)
def build(self, spec, prefix):
mkdirp(prefix.bin)
make_args = []
if "~openmp" in spec:
make_args.append("openmp=no")
if "~zlib" in spec:
make_args.append("zlib=no")
make(*make_args)
def setup_build_environment(self, env):
env.set("PREFIX", self.prefix.bin)
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