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# Copyright 2013-2021 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 *
import sys
class Subread(MakefilePackage):
"""The Subread software package is a tool kit for processing next-gen
sequencing data."""
homepage = "http://subread.sourceforge.net/"
url = "https://iweb.dl.sourceforge.net/project/subread/subread-1.5.2/subread-1.5.2-source.tar.gz"
version('2.0.2', sha256='0b64bd51f39f8d322c4594697fa5f0f64fbe60283113eadadff9f4268f897079')
version('2.0.0', sha256='bd7b45f7d8872b0f5db5d23a385059f21d18b49e432bcb6e3e4a879fe51b41a8')
version('1.6.4', sha256='b7bd0ee3b0942d791aecce6454d2f3271c95a010beeeff2daf1ff71162e43969')
version('1.6.2', sha256='77b4896c1c242967c5883a06c0a5576a5ff220008a12aa60af9669d2f9a87d7a')
version('1.6.0', sha256='31251ec4c134e3965d25ca3097890fb37e2c7a4163f6234515534fd325b1002a')
version('1.5.2', sha256='a8c5f0e09ed3a105f01866517a89084c7302ff70c90ef8714aeaa2eab181a0aa')
depends_on('zlib')
def build(self, spec, prefix):
plat = sys.platform
with working_dir('src'):
if plat.startswith('linux'):
filter_file(
'CC_EXEC = gcc',
'CC_EXEC = {0}'.format(spack_cc),
'Makefile.Linux'
)
if spec.target.family == 'aarch64':
filter_file('-mtune=core2', '', 'Makefile.Linux')
if spec.satisfies('@1.6.2:2.0.0'):
filter_file(
'-mtune=core2',
'',
'longread-one/Makefile'
)
elif spec.satisfies('@1.6.0'):
filter_file(
'-mtune=core2',
'',
'longread-mapping/Makefile'
)
make('-f', 'Makefile.Linux')
elif plat.startswith('darwin'):
make('-f', 'Makefile.MacOS')
else:
raise InstallError("The communication mechanism %s is not"
"supported" % plat)
def install(self, spec, prefix):
install_tree('bin', prefix.bin)
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