39 lines
1.4 KiB
Python
39 lines
1.4 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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import os
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from spack.package import *
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class Rnaquast(Package):
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"""Quality assessment of de novo transcriptome assemblies from RNA-Seq data
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rnaQUAST is a tool for evaluating RNA-Seq assemblies using reference genome
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and gene database. In addition, rnaQUAST is also capable of estimating gene
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database coverage by raw reads and de novo quality assessment
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using third-party software."""
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homepage = "https://github.com/ablab/rnaquast"
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url = "https://github.com/ablab/rnaquast/archive/refs/tags/v2.2.0.tar.gz"
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maintainers("dorton21")
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version("2.2.0", sha256="117dff9d9c382ba74b7b0ff24bc7b95b9ca6aa701ebf8afd22943aa54e382334")
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depends_on("python@2.5:", type=("build", "run"))
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depends_on("py-matplotlib", type=("build", "run"))
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depends_on("py-joblib", type=("build", "run"))
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depends_on("py-gffutils", type=("build", "run"))
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depends_on("gmap-gsnap", type=("build", "run"))
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depends_on("blast-plus", type=("build", "run"))
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def install(self, spec, prefix):
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install_tree(".", prefix.bin)
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os.rename("%s/rnaQUAST.py" % prefix.bin, "%s/rnaQUAST" % prefix.bin)
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def setup_run_environment(self, env):
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env.prepend_path("PATH", prefix.bin)
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