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# Copyright 2013-2023 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 Shoremap(MakefilePackage):
"""SHOREmap is a computational tool implementing a method that enables
simple and straightforward mapping-by-sequencing analysis.
Whole genome resequencing of pools of recombinant mutant genomes allows
directly linking phenotypic traits to causal mutations. Such an
analysis, called mapping-by-sequencing, combines classical genetic
mapping and next generation sequencing by relying on selection-induced
patterns within genome-wide allele frequency in pooled genomes."""
homepage = "http://bioinfo.mpipz.mpg.de/shoremap/"
url = "http://bioinfo.mpipz.mpg.de/shoremap/SHOREmap_v3.6.tar.gz"
license("GPL-3.0-or-later")
version("3.6", sha256="0da4179e92cbc68434a9d8eff7bd5fff55c89fd9a543a2db6bd0f69074f2ec70")
depends_on("dislin")
def edit(self, spec, prefix):
makefile = FileFilter("makefile")
makefile.filter(r"-L/usr/lib/", self.spec["libxt"].libs.search_flags)
makefile.filter(r"-L\./dislin.* -ldislin_d", self.spec["dislin:d"].libs.ld_flags)
def install(self, spec, prefix):
mkdirp(prefix.bin)
install("SHOREmap", prefix.bin)
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