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pbbam: switching to meson, adding version 2.1.0 (#32996)

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snehring 2022-10-04 19:38:08 -05:00 committed by GitHub
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1 changed files with 16 additions and 19 deletions
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var/spack/repos/builtin/packages/pbbam/package.py
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@ -4,46 +4,43 @@
# SPDX-License-Identifier: (Apache-2.0 OR MIT) # SPDX-License-Identifier: (Apache-2.0 OR MIT)
from spack.package import * from spack.package import *
from spack.pkg.builtin.boost import Boost
class Pbbam(CMakePackage): class Pbbam(MesonPackage):
"""The pbbam software package provides components to create, query, """The pbbam software package provides components to create, query,
& edit PacBio BAM files and associated indices. & edit PacBio BAM files and associated indices.
These components include a core C++ library, These components include a core C++ library,
bindings for additional languages, and command-line utilities.""" bindings for additional languages, and command-line utilities."""
homepage = "https://github.com/PacificBiosciences/pbbam" homepage = "https://github.com/PacificBiosciences/pbbam"
url = "https://github.com/PacificBiosciences/pbbam/archive/0.18.0.tar.gz" url = "https://github.com/PacificBiosciences/pbbam/archive/refs/tags/0.18.0.tar.gz"
maintainers = ["snehring"]
version(
"2.1.0",
sha256="605944f09654d964ce12c31d67e6766dfb1513f730ef5d4b74829b2b84dd464f",
url="https://github.com/PacificBiosciences/pbbam/archive/refs/tags/v2.1.0.tar.gz",
)
version("0.18.0", sha256="45286e5f7deb7ff629e0643c8a416155915aec7b85d54c60b5cdc07f4d7b234a") version("0.18.0", sha256="45286e5f7deb7ff629e0643c8a416155915aec7b85d54c60b5cdc07f4d7b234a")
depends_on("zlib") depends_on("zlib")
depends_on("boost@1.55.0:") depends_on("boost@1.55.0:")
# TODO: replace this with an explicit list of components of Boost,
# for instance depends_on('boost +filesystem')
# See https://github.com/spack/spack/pull/22303 for reference
depends_on(Boost.with_default_variants)
depends_on("htslib@1.3.1:") depends_on("htslib@1.3.1:")
depends_on("doxygen+graphviz") # newer versions require C17
conflicts("%gcc@:7.5.0", when="@2.1.0:")
conflicts("%clang@:6.0.1", when="@2.1.0:")
conflicts("%gcc@:5.2.0") def meson_args(self):
def cmake_args(self):
options = [] options = []
if self.run_tests: if self.run_tests:
options.append("-DPacBioBAM_build_tests:BOOL=ON") options.append("-Dtests=true")
else: else:
options.append("-DPacBioBAM_build_tests:BOOL=OFF") options.append("-Dtests=false")
return options return options
def install(self, spec, prefix): def setup_build_environment(self, env):
with working_dir(self.build_directory): env.set("BOOST_ROOT", self.spec["boost"].prefix)
install_tree("bin", prefix.bin)
install_tree("lib", prefix.lib)
install_tree("pbbam", prefix.include.pbbam)
def setup_dependent_build_environment(self, env, dependent_spec): def setup_dependent_build_environment(self, env, dependent_spec):
env.set("PacBioBAM_LIBRARIES", self.prefix.lib) env.set("PacBioBAM_LIBRARIES", self.prefix.lib)