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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 Xhmm(MakefilePackage):
"""The XHMM C++ software suite was written to
call copy number variation (CNV) from next-generation
sequencing projects, where exome capture was used
(or targeted sequencing, more generally)."""
homepage = "http://atgu.mgh.harvard.edu/xhmm/index.shtml"
git = "https://bitbucket.org/statgen/xhmm.git"
version('20160104', commit='cc14e528d90932f059ac4fe94e869e81221fd732')
depends_on('lapack')
def edit(self, spec, prefix):
filter_file('GCC', 'CC', 'sources/hmm++/config_rules.Makefile')
filter_file('GCC =gcc', '', 'sources/hmm++/config_defs.Makefile')
def build(self, spec, prefix):
make('LAPACK_LIBS=%s' % ''.join(spec['lapack'].libs.names))
def install(self, spec, prefix):
mkdir(prefix.bin)
install('xhmm', prefix.bin)
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