48 lines
2.2 KiB
Python
48 lines
2.2 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 Breakdancer(CMakePackage):
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"""BreakDancer-1.3.6, released under GPLv3, is a Cpp package that provides
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genome-wide detection of structural variants from next generation
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paired-end sequencing reads. It includes two complementary programs.
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BreakDancerMax predicts five types of structural variants: insertions,
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deletions, inversions, inter- and intra-chromosomal translocations from
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next-generation short paired-end sequencing reads using read pairs that are
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mapped with unexpected separation distances or orientation.
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BreakDancerMini focuses on detecting small indels (usually between 10bp and
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100bp) using normally mapped read pairs.."""
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homepage = "http://gmt.genome.wustl.edu/packages/breakdancer"
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url = "https://github.com/genome/breakdancer.git"
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version('master', git='https://github.com/genome/breakdancer.git',
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submodules='true')
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depends_on('zlib')
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parallel = False
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