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| -rw-r--r-- | var/spack/repos/builtin/packages/pbbam/package.py | 62 |
1 files changed, 62 insertions, 0 deletions
diff --git a/var/spack/repos/builtin/packages/pbbam/package.py b/var/spack/repos/builtin/packages/pbbam/package.py new file mode 100644 index 0000000000..f9b1ccc727 --- /dev/null +++ b/var/spack/repos/builtin/packages/pbbam/package.py @@ -0,0 +1,62 @@ +############################################################################## +# Copyright (c) 2013-2018, Lawrence Livermore National Security, LLC. +# Produced at the Lawrence Livermore National Laboratory. +# +# This file is part of Spack. +# Created by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. +# LLNL-CODE-647188 +# +# For details, see https://github.com/spack/spack +# Please also see the NOTICE and LICENSE files for our notice and the LGPL. +# +# This program is free software; you can redistribute it and/or modify +# it under the terms of the GNU Lesser General Public License (as +# published by the Free Software Foundation) version 2.1, February 1999. +# +# This program is distributed in the hope that it will be useful, but +# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF +# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and +# conditions of the GNU Lesser General Public License for more details. +# +# You should have received a copy of the GNU Lesser General Public +# License along with this program; if not, write to the Free Software +# Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA +############################################################################## +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) |