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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 Shortstack(Package):
"""ShortStack is a tool developed to process and analyze smallRNA-seq data
with respect to a reference genome, and output a comprehensive and
informative annotation of all discovered small RNA genes."""
homepage = "https://sites.psu.edu/axtell/software/shortstack/"
url = "https://github.com/MikeAxtell/ShortStack/archive/v3.8.3.tar.gz"
license("MIT")
version("4.0.1", sha256="d8ca2d5b245d13c9f2b2e6fa06bc34bc8f6bacbe07efebe3750b0178141cbeb6")
version("3.8.3", sha256="7c76f51ed949ca95ec5df7cb54803ae2350658fd64c75909351d5a856abb0dbe")
depends_on("perl", type=("build", "run"))
depends_on("samtools")
depends_on("viennarna")
depends_on("bowtie")
def install(self, spec, prefix):
mkdirp(prefix.bin)
install("ShortStack", prefix.bin)
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