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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 IqTree(CMakePackage):
"""IQ-TREE Efficient software for phylogenomic inference"""
homepage = "http://www.iqtree.org"
git = "https://github.com/iqtree/iqtree2.git"
url = "https://github.com/Cibiv/IQ-TREE/archive/v1.6.12.tar.gz"
license("GPL-2.0-or-later")
version(
"2.2.2.7",
tag="v2.2.2.7",
commit="bd3468c7af6572ea29002dfdba377804f8f56c26",
submodules=True,
)
version(
"2.1.3", tag="v2.1.3", commit="3d31be9e56b05ffbc5f8488fc8285597b433c99f", submodules=True
)
version(
"2.0.6", tag="v2.0.6", commit="219e88407ac915a209a29808a81084bf0d5f1a84", submodules=True
)
version("1.6.12", sha256="9614092de7a157de82c9cc402b19cc8bfa0cb0ffc93b91817875c2b4bb46a284")
variant("openmp", default=True, description="Enable OpenMP support.")
variant("mpi", default=False, description="Enable MPI support.")
variant("lsd2", default=True, description="Activate Least Squares Dating.")
maintainers("ilbiondo")
# Depends on Eigen3 and zlib
depends_on("boost+container+math+exception")
depends_on("eigen")
depends_on("zlib-api")
depends_on("mpi", when="+mpi")
def cmake_args(self):
spec = self.spec
args = []
iqflags = []
if "+lsd2" in spec:
args.append("-DUSE_LSD2=ON")
if "+openmp" in spec:
iqflags.append("omp")
if "+mpi" in spec:
iqflags.append("mpi")
if not iqflags:
iqflags.append("single")
args.append("-DIQTREE_FLAGS=" + ",".join(iqflags))
return args
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