2929ea02a1
Builders and package classes refer to packages from the builtin package repo and are often modified together with packages. That means that these classes should move into `spack_repo.builtin`. * move `spack.build_systems` -> `spack_repo.builtin.build_systems` * Remove the following re-exports from the `spack.package` module: - `AspellDictPackage` - `LuaPackage` - `AutotoolsPackage` - `MakefilePackage` - `BundlePackage` - `MavenPackage` - `CachedCMakePackage` - `MesonPackage` - `cmake_cache_filepath` - `MSBuildPackage` - `cmake_cache_option` - `NMakePackage` - `cmake_cache_path` - `OctavePackage` - `cmake_cache_string` - `PerlPackage` - `CargoPackage` - `PythonExtension` - `CMakePackage` - `PythonPackage` - `generator` - `QMakePackage` - `CompilerPackage` - `RacketPackage` - `CudaPackage` - `RPackage` - `Package` - `ROCmPackage` - `GNUMirrorPackage` - `RubyPackage` - `GoPackage` - `SConsPackage` - `IntelPackage` - `SIPPackage` - `IntelOneApiLibraryPackageWithSdk` - `SourceforgePackage` - `IntelOneApiLibraryPackage` - `SourcewarePackage` - `IntelOneApiStaticLibraryList` - `WafPackage` - `IntelOneApiPackage` - `XorgPackage` - `INTEL_MATH_LIBRARIES` * update mock packages to repo v2.0 and add copies of packages/build systems they use from builtin * add missing imports to build systems in `package.py` from builtin and test repos * update various tests This PR is breaking because of removal of various names from `spack.package`, but breakage should be minimal thanks to #50496, which ensures the above names are always imported in repo v1 packages. Specifically this PR breaks imports like the following in `package.py` files: ```python from spack.package import Package ``` but if your repo is v1.0 (see `spack repo list`) and has the following much more common pattern: ```python from spack.package import * ``` nothing should break.
46 lines
1.4 KiB
Python
46 lines
1.4 KiB
Python
# Copyright Spack Project Developers. See COPYRIGHT file for details.
|
|
#
|
|
# SPDX-License-Identifier: (Apache-2.0 OR MIT)
|
|
|
|
from spack_repo.builtin.build_systems.makefile import MakefilePackage
|
|
|
|
from spack.package import *
|
|
|
|
from ..boost.package import Boost
|
|
|
|
|
|
class Metacarpa(MakefilePackage):
|
|
"""
|
|
METACARPA is designed for meta-analysing genetic
|
|
association studies with overlapping or related samples,
|
|
when details of the overlap or relatedness are unknown.
|
|
It implements and expands a method first described by Province and Borecki.
|
|
"""
|
|
|
|
homepage = "https://www.sanger.ac.uk/tool/metacarpa/"
|
|
url = "https://github.com/hmgu-itg/metacarpa/archive/refs/tags/1.0.1.tar.gz"
|
|
|
|
version("1.0.1", sha256="7d8fc774a88bf75a53ef8f74462924abba9b99fccbaa9979654c01e4379fab91")
|
|
|
|
depends_on("cxx", type="build") # generated
|
|
|
|
depends_on("boost@1.60.0")
|
|
depends_on(Boost.with_default_variants)
|
|
depends_on("cmake")
|
|
build_system = "Makefile"
|
|
build_directory = "src"
|
|
|
|
def edit(self, spec, prefix):
|
|
makefile = FileFilter("src/Makefile")
|
|
makefile.filter(r"^IDIR.*", "IDIR=" + spec["boost"].prefix.include)
|
|
makefile.filter(r"^LDIR.*", "LDIR=" + spec["boost"].prefix.lib)
|
|
|
|
def install(self, spec, prefix):
|
|
mkdirp(prefix.src)
|
|
|
|
install_tree("src", prefix.src)
|
|
|
|
mkdirp(prefix.bin)
|
|
|
|
install("src/metacarpa", prefix.bin)
|