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# Copyright 2013-2018 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 Busco(PythonPackage):
"""Assesses genome assembly and annotation completeness with Benchmarking
Universal Single-Copy Orthologs"""
homepage = "http://busco.ezlab.org/"
url = "https://gitlab.com/api/v4/projects/ezlab%2Fbusco/repository/archive.tar.gz?sha=2.0.1"
git = "https://gitlab.com/ezlab/busco.git"
# TODO: check the installation procedure for version 3.0.2
# and uncomment the following line
# version('3.0.2', '31d80042bb7e96422843fa43d0acbd21')
# There is no tag for version 3.0.1
version('3.0.1', commit='078252e00399550d7b0e8941cd4d986c8e868a83')
version('2.0.1', '4dbcc8a0c18fa8f8312c103eb2fbb4e2')
depends_on('python', type=('build', 'run'))
depends_on('blast-plus')
depends_on('hmmer')
depends_on('augustus')
def build(self, spec, prefix):
if self.spec.satisfies('@2.0.1'):
pass
def install(self, spec, prefix):
if self.spec.satisfies('@3.0.1'):
with working_dir('scripts'):
mkdirp(prefix.bin)
install('generate_plot.py', prefix.bin)
install('run_BUSCO.py', prefix.bin)
install_tree('config', prefix.config)
args = self.install_args(spec, prefix)
self.setup_py('install', *args)
if self.spec.satisfies('@2.0.1'):
mkdirp(prefix.bin)
install('BUSCO.py', prefix.bin)
install('BUSCO_plot.py', prefix.bin)
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