32 lines
1.1 KiB
Python
32 lines
1.1 KiB
Python
# Copyright 2013-2023 Lawrence Livermore National Security, LLC and other
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# Spack Project Developers. See the top-level COPYRIGHT file for details.
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#
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# SPDX-License-Identifier: (Apache-2.0 OR MIT)
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from spack.package import *
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class Pharokka(Package):
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"""pharokka is a rapid standardised annotation
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pipeline for bacteriophage genomes"""
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homepage = "https://github.com/gbouras13/pharokka"
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url = "https://github.com/gbouras13/pharokka/archive/refs/tags/v1.1.0.tar.gz"
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version("1.1.0", sha256="57d546f501f201117f5d8037ac47c0d83ccd1ec518080145e8f28d3e9843fba6")
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depends_on("py-bcbio-gff", type="run")
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depends_on("py-biopython@1.78:", type="run")
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depends_on("py-phanotate@1.5.0:", type="run")
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depends_on("py-pandas", type="run")
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depends_on("mmseqs2@13.45111", type="run")
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depends_on("trnascan-se@2.0.9:", type="run")
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depends_on("prodigal@2.6.3:", type="run")
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depends_on("minced@0.4.2:", type="run")
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depends_on("aragorn@1.2.41:", type="run")
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def install(self, spec, prefix):
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mkdirp(prefix.bin)
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install_tree("bin", prefix.bin)
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