1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
|
# Copyright 2013-2021 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 = "https://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', sha256='39f812452cae26462e5d2671d38104d9e8ef30aaf9ab6dea8ca57f50f46448e4')
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)
|
