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# Copyright 2013-2024 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.package import *
class PacbioDextractor(MakefilePackage):
"""The Dextractor and Compression Command Library. This is a special
fork required by some pacbio utilities."""
homepage = "https://github.com/PacificBiosciences/DEXTRACTOR"
git = "https://github.com/PacificBiosciences/DEXTRACTOR.git"
version("2016-08-09", commit="89726800346d0bed15d98dcc577f4c7733aab4b1")
depends_on("hdf5")
depends_on("gmake", type="build")
def edit(self, spec, prefix):
mkdirp(prefix.bin)
makefile = FileFilter("Makefile")
makefile.filter(
r"PATH_HDF5\s*=\s*/sw/apps/hdf5/current", "PATH_HDF5 = " + spec["hdf5"].prefix
)
makefile.filter(r"PATH_HDF5\*s=\s*/usr/local/hdf5", "")
makefile.filter(r"DEST_DIR\s*=\s*~/bin", "DEST_DIR = " + prefix.bin)
gmf = FileFilter("GNUmakefile")
gmf.filter(r"rsync\s*-av\s*\$\{ALL\}\s*\$\{PREFIX\}/bin", "cp ${ALL} " + prefix.bin)
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