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py-mikado: new package at 20201016 (#20186)

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Justin S 2020-12-02 13:20:27 -06:00 committed by GitHub
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# Copyright 2013-2020 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 import *
class PyMikado(PythonPackage):
"""Mikado is a lightweight Python3 pipeline whose purpose is to facilitate
the identification of expressed loci from RNA-Seq data * and to select
the best models in each locus."""
homepage = "https://github.com/EI-CoreBioinformatics/mikado"
git = "git://github.com/EI-CoreBioinformatics/mikado"
version('20201016', commit='2501ba995d85e62e47165fe72592666a4c79f61a')
depends_on('python@3:', type=('build', 'run'))
depends_on('py-setuptools', type='build')
depends_on('py-cython', type='build')
depends_on('py-wheel@0.28.0:', type=('build', 'run'))
depends_on('py-pyyaml', type=('build', 'run'))
depends_on('py-jsonschema@3.0.1:', type=('build', 'run'))
depends_on('py-numpy@1.16.0:', type=('build', 'run'))
depends_on('py-networkx@2:', type=('build', 'run'))
depends_on('py-sqlalchemy@1.3:', type=('build', 'run'))
depends_on('py-sqlalchemy-utils', type=('build', 'run'))
depends_on('py-biopython@1.78:', type=('build', 'run'))
depends_on('py-intervaltree', type=('build', 'run'))
depends_on('py-pytest', type=('build', 'run'))
depends_on('py-pyfaidx', type=('build', 'run'))
depends_on('py-scikit-learn@0.17.0:', type=('build', 'run'))
depends_on('py-scipy@1.0.0:', type=('build', 'run'))
depends_on('py-drmaa', type=('build', 'run'))
depends_on('snakemake', type=('build', 'run'))
depends_on('py-docutils@0.13.2:', type=('build', 'run'))
depends_on('py-tabulate', type=('build', 'run'))
depends_on('py-msgpack@1.0.0:', type=('build', 'run'))
depends_on('py-python-rapidjson@0.8:', type=('build', 'run'))
depends_on('py-pandas', type=('build', 'run'))
depends_on('py-jsonref', type=('build', 'run'))
depends_on('py-pysam@0.15.3:', type=('build', 'run'))
depends_on('py-toml', type=('build', 'run'))
depends_on('py-tomlkit', type=('build', 'run'))