66 lines
2.7 KiB
Python
66 lines
2.7 KiB
Python
##############################################################################
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# Copyright (c) 2013-2018, Lawrence Livermore National Security, LLC.
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# Produced at the Lawrence Livermore National Laboratory.
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#
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# This file is part of Spack.
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# Created by Todd Gamblin, tgamblin@llnl.gov, All rights reserved.
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# LLNL-CODE-647188
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#
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# For details, see https://github.com/spack/spack
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# Please also see the NOTICE and LICENSE files for our notice and the LGPL.
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#
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# This program is free software; you can redistribute it and/or modify
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# it under the terms of the GNU Lesser General Public License (as
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# published by the Free Software Foundation) version 2.1, February 1999.
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#
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# This program is distributed in the hope that it will be useful, but
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# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF
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# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and
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# conditions of the GNU Lesser General Public License for more details.
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#
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# You should have received a copy of the GNU Lesser General Public
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# License along with this program; if not, write to the Free Software
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# Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
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##############################################################################
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from spack import *
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class Busco(PythonPackage):
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"""Assesses genome assembly and annotation completeness with Benchmarking
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Universal Single-Copy Orthologs"""
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homepage = "http://busco.ezlab.org/"
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url = "https://gitlab.com/api/v4/projects/ezlab%2Fbusco/repository/archive.tar.gz?sha=2.0.1"
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git = "https://gitlab.com/ezlab/busco.git"
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# TODO: check the installation procedure for version 3.0.2
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# and uncomment the following line
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# version('3.0.2', '31d80042bb7e96422843fa43d0acbd21')
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# There is no tag for version 3.0.1
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version('3.0.1', commit='078252e00399550d7b0e8941cd4d986c8e868a83')
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version('2.0.1', '4dbcc8a0c18fa8f8312c103eb2fbb4e2')
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depends_on('python', type=('build', 'run'))
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depends_on('blast-plus')
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depends_on('hmmer')
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depends_on('augustus')
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def build(self, spec, prefix):
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if self.spec.satisfies('@2.0.1'):
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pass
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def install(self, spec, prefix):
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if self.spec.satisfies('@3.0.1'):
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with working_dir('scripts'):
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mkdirp(prefix.bin)
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install('generate_plot.py', prefix.bin)
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install('run_BUSCO.py', prefix.bin)
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install_tree('config', prefix.config)
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args = self.install_args(spec, prefix)
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self.setup_py('install', *args)
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if self.spec.satisfies('@2.0.1'):
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mkdirp(prefix.bin)
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install('BUSCO.py', prefix.bin)
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install('BUSCO_plot.py', prefix.bin)
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