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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 Pbbam(CMakePackage):
"""The pbbam software package provides components to create, query,
& edit PacBio BAM files and associated indices.
These components include a core C++ library,
bindings for additional languages, and command-line utilities."""
homepage = "https://github.com/PacificBiosciences/pbbam"
url = "https://github.com/PacificBiosciences/pbbam/archive/0.18.0.tar.gz"
version('0.18.0', 'abbb687b1e7ea08916c26da828e11384')
depends_on('zlib')
depends_on('boost@1.55.0:')
depends_on('htslib@1.3.1:')
depends_on('doxygen+graphviz')
conflicts('%gcc@:5.2.0')
def cmake_args(self):
options = []
if self.run_tests:
options.append('-DPacBioBAM_build_tests:BOOL=ON')
else:
options.append('-DPacBioBAM_build_tests:BOOL=OFF')
return options
def install(self, spec, prefix):
install_tree('spack-build/bin', prefix.bin)
install_tree('spack-build/lib', prefix.lib)
install_tree('include/pbbam', prefix.include.pbbam)
def setup_dependent_environment(self, spack_env, run_env, dependent_spec):
spack_env.set('PacBioBAM_LIBRARIES', self.prefix.lib)
spack_env.set('PacBioBAM_INCLUDE_DIRS', self.prefix.include)
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