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raxml: simplified recipe by removing SIMD variants (#12952)

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Now the support for SSE3 or AVX is tested on the selected target
This commit is contained in:
Massimiliano Culpo
2019-09-28 20:45:01 +02:00
committed by Adam J. Stewart
parent c065c25a4c
commit 467261803f
1 changed files with 12 additions and 46 deletions
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58
var/spack/repos/builtin/packages/raxml/package.py
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@@ -2,26 +2,22 @@
# Spack Project Developers. See the top-level COPYRIGHT file for details.
#
# SPDX-License-Identifier: (Apache-2.0 OR MIT)
from spack import *
from spack.spec import ConflictsInSpecError
import glob
class Raxml(Package):
"""RAxML (Randomized Axelerated Maximum Likelihood) is a program for
sequential and parallel Maximum Likelihood based inference of large
phylogenetic trees."""
sequential and parallel Maximum Likelihood based inference of large
phylogenetic trees.
"""
homepage = "https://sco.h-its.org/exelixis/web/software/raxml"
url = "https://github.com/stamatak/standard-RAxML/archive/v8.2.11.tar.gz"
url = "https://github.com/stamatak/standard-RAxML/archive/v8.2.11.tar.gz"
version('8.2.11', '6bd5c4e1f93003ccf13c9b59a5d080ab')
variant('mpi', default=True, description='Enable MPI parallel support')
variant('pthreads', default=False, description='Enable pthreads version')
variant('sse', default=False, description='Enable SSE in order to substantially speed up execution')
variant('avx', default=False, description='Enable AVX in order to substantially speed up execution')
depends_on('mpi', when='+mpi')
@@ -38,36 +34,6 @@ class Raxml(Package):
# can't build multiple binaries in parallel without things breaking
parallel = False
def flag_handler(self, name, flags):
arch = ''
spec = self.spec
if spec.satisfies("platform=cray"):
# FIXME; It is assumed that cray is x86_64.
# If you support arm on cray, you need to fix it.
arch = 'x86_64'
if arch != 'x86_64' and not spec.target.family == 'x86_64':
if spec.satisfies("+sse"):
raise ConflictsInSpecError(
spec,
[(
spec,
spec.architecture.target,
spec.variants['sse'],
'+sse is valid only on x86_64'
)]
)
if spec.satisfies("+avx"):
raise ConflictsInSpecError(
spec,
[(
spec,
spec.architecture.target,
spec.variants['avx'],
'+avx is valid only on x86_64'
)]
)
return (flags, None, None)
def install(self, spec, prefix):
mkdirp(prefix.bin)
files = glob.iglob("Makefile.*")
@@ -78,11 +44,11 @@ def install(self, spec, prefix):
makefile.filter('mpicc', self.spec['mpi'].mpicc)
if spec.target.family == 'x86_64':
if spec.satisfies('+mpi +avx +pthreads'):
if spec.satisfies('+mpi +pthreads') and 'avx' in spec.target:
make('-f', 'Makefile.AVX.HYBRID.gcc')
install('raxmlHPC-HYBRID-AVX', prefix.bin)
if spec.satisfies('+mpi +sse +pthreads'):
if spec.satisfies('+mpi +pthreads') and 'sse3' in spec.target:
make('-f', 'Makefile.SSE3.HYBRID.gcc')
install('raxmlHPC-HYBRID-SSE3', prefix.bin)
@@ -90,11 +56,11 @@ def install(self, spec, prefix):
make('-f', 'Makefile.HYBRID.gcc')
install('raxmlHPC-HYBRID', prefix.bin)
if spec.satisfies('+mpi +avx'):
if spec.satisfies('+mpi') and 'avx' in spec.target:
make('-f', 'Makefile.AVX.MPI.gcc')
install('raxmlHPC-MPI-AVX', prefix.bin)
if spec.satisfies('+mpi +sse'):
if spec.satisfies('+mpi') and 'sse3' in spec.target:
make('-f', 'Makefile.SSE3.MPI.gcc')
install('raxmlHPC-MPI-SSE3', prefix.bin)
@@ -102,11 +68,11 @@ def install(self, spec, prefix):
make('-f', 'Makefile.MPI.gcc')
install('raxmlHPC-MPI', prefix.bin)
if spec.satisfies('+pthreads +avx'):
if spec.satisfies('+pthreads') and 'avx' in spec.target:
make('-f', 'Makefile.AVX.PTHREADS.gcc')
install('raxmlHPC-PTHREADS-AVX', prefix.bin)
if spec.satisfies('+pthreads +sse'):
if spec.satisfies('+pthreads') and 'sse3' in spec.target:
make('-f', 'Makefile.SSE3.PTHREADS.gcc')
install('raxmlHPC-PTHREADS-SSE3', prefix.bin)
@@ -114,11 +80,11 @@ def install(self, spec, prefix):
make('-f', 'Makefile.PTHREADS.gcc')
install('raxmlHPC-PTHREADS', prefix.bin)
if spec.satisfies('+sse'):
if 'sse3' in spec.target:
make('-f', 'Makefile.SSE3.gcc')
install('raxmlHPC-SSE3', prefix.bin)
if spec.satisfies('+avx'):
if 'avx' in spec.target:
make('-f', 'Makefile.AVX.gcc')
install('raxmlHPC-AVX', prefix.bin)