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# Copyright 2013-2019 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 import *
class Cufflinks(Package):
"""Cufflinks assembles transcripts, estimates their abundances, and tests
for differential expression and regulation in RNA-Seq samples."""
homepage = "http://cole-trapnell-lab.github.io/cufflinks"
url = "http://cole-trapnell-lab.github.io/cufflinks/assets/downloads/cufflinks-2.2.1.Linux_x86_64.tar.gz"
version('2.2.1', '7e693d182dcfda8aeef8523219ea9ea7')
def install(self, spec, prefix):
mkdirp(prefix.bin)
install('cuffcompare', prefix.bin)
install('cuffdiff', prefix.bin)
install('cufflinks', prefix.bin)
install('cuffmerge', prefix.bin)
install('cuffnorm', prefix.bin)
install('cuffquant', prefix.bin)
install('gffread', prefix.bin)
install('gtf_to_sam', prefix.bin)
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