38 lines
1.4 KiB
Python
38 lines
1.4 KiB
Python
# Copyright 2013-2022 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 Transdecoder(MakefilePackage):
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"""TransDecoder identifies candidate coding regions within transcript
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sequences, such as those generated by de novo RNA-Seq transcript
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assembly using Trinity, or constructed based on RNA-Seq alignments to
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the genome using Tophat and Cufflinks."""
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homepage = "https://transdecoder.github.io/"
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url = "https://github.com/TransDecoder/TransDecoder/archive/TransDecoder-v5.5.0.tar.gz"
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version("5.5.0", sha256="c800d9226350817471e9f51267c91f7cab99dbc9b26c980527fc1019e7d90a76")
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version(
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"3.0.1",
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sha256="753a5fac5bfd04466aeabff48053c92e876cece8906b96de3b72f23f86fafae7",
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url="https://github.com/TransDecoder/TransDecoder/archive/v3.0.1.tar.gz",
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)
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depends_on("perl", type=("build", "run"))
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depends_on("perl-uri", type="run")
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def install(self, spec, prefix):
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mkdirp(prefix.util)
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install("TransDecoder.LongOrfs", prefix)
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install("TransDecoder.Predict", prefix)
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install_tree("PerlLib", prefix.PerlLib)
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install_tree("util", prefix.util)
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def setup_run_environment(self, env):
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env.prepend_path("PATH", self.prefix)
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env.prepend_path("PATH", self.prefix.util)
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