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py-unicycler: new package (#7727)

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Sinan 2019-02-25 00:44:05 -08:00 committed by Massimiliano Culpo
parent 2851b3f57c
commit 691a2f4b71
1 changed files with 35 additions and 0 deletions
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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 PyUnicycler(PythonPackage):
"""Unicycler is an assembly pipeline for bacterial genomes. It can
assemble Illumina-only read sets where it functions as a SPAdes-optimiser.
It can also assembly long-read-only sets (PacBio or Nanopore) where it
runs a miniasm+Racon pipeline. For the best possible assemblies, give it
both Illumina reads and long reads, and it will conduct a hybrid assembly.
"""
homepage = "https://github.com/rrwick/Unicycler"
url = "https://github.com/rrwick/Unicycler/archive/v0.4.5.tar.gz"
version('0.4.7', '10ee4fef4bd9a46702de83537a902164')
version('0.4.6', '78633a5f557af23e62d6b37d1caedf53')
version('0.4.5', 'f7b4f6b712fee6a4fa86a046a6781768')
depends_on('python@3.4:', type=('build', 'link', 'run'))
depends_on('py-setuptools', type=('build', 'run'))
depends_on('spades', type='run')
depends_on('pilon', type='run')
depends_on('jdk', type=('build', 'run'))
depends_on('bowtie2', type='run')
depends_on('samtools@1.0:', type=('build', 'link', 'run'))
depends_on('racon', type=('build', 'link', 'run'))
depends_on('blast-plus', type='run')
conflicts('%gcc@:4.9.0')
conflicts('%clang@:3.4.2')