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Diffstat (limited to 'var/spack/repos/builtin/packages/py-drep/package.py')
| -rw-r--r-- | var/spack/repos/builtin/packages/py-drep/package.py | 44 |
1 files changed, 44 insertions, 0 deletions
diff --git a/var/spack/repos/builtin/packages/py-drep/package.py b/var/spack/repos/builtin/packages/py-drep/package.py new file mode 100644 index 0000000000..a7ec0b3d00 --- /dev/null +++ b/var/spack/repos/builtin/packages/py-drep/package.py @@ -0,0 +1,44 @@ +# Copyright 2013-2022 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 PyDrep(PythonPackage): + """dRep is a python program for rapidly comparing large numbers of genomes. + dRep can also "de-replicate" a genome set by identifying groups of highly + similar genomes and choosing the best representative genome for each + genome set.""" + + homepage = "https://github.com/MrOlm/drep" + pypi = "drep/drep-3.4.0.tar.gz" + + version("3.4.0", sha256="a6533eb585122c1ee66ae622b1b97450a3e1e493a3c3c1d55e79a580d5c46d40") + + variant("fastani", default=True, description="Enable fastANI support") + variant("py-checkm-genome", default=True, description="Enable CheckM support") + variant("anicalculator", default=True, description="Enable gDNA support") + variant("prodigal", default=True, description="Used with both checkM and gANI") + + depends_on("py-setuptools", type="build") + depends_on("py-numpy", type=("build", "run")) + depends_on("py-pandas", type=("build", "run")) + depends_on("py-seaborn", type=("build", "run")) + depends_on("py-matplotlib", type=("build", "run")) + depends_on("py-biopython", type=("build", "run")) + depends_on("py-scikit-learn", type=("build", "run")) + depends_on("py-tqdm", type=("build", "run")) + depends_on("py-pytest", type=("build", "run")) + # Non-python dependencies + # https://drep.readthedocs.io/en/latest/installation.html#dependencies + # essential dependencies + depends_on("mash@1.1.1:", type="run") + depends_on("mummer@3.23:", type="run") + # recommended dependencies + depends_on("fastani", type="run", when="+fastani") + depends_on("py-checkm-genome@1.0.7:", type="run", when="+py-checkm-genome") + depends_on("anicalculator@1:", type="run", when="+anicalculator") + depends_on("prodigal@2.6.3:", type="run", when="+prodigal") |