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adding falcon (#5057)

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* py-networkx: adding older version py-networkx

* py-pypeflow: new package

* falcon: adding new package
pacbio-daligner: adding new package
pacbio-damasker: adding new package
pacbio-dazz-db: adding new package
pacbio-dextractor: adding new package

* py-networkx: modifying version order to be in line with convention

* falcon: tweaking py-networkx dependency to satisfy setuptools
py-pypeflow: adding missing dependency

* pacbio-dextractor: changing hdf5 dependency

* pacbio-daligner: adding gmake build dep
pacbio-damasker: adding gmake build dep
pacbio-dazz-db: adding gmake build dep
pacbio-dextractor: adding gmake build dep
This commit is contained in:
snehring
2017-08-11 17:26:20 -05:00
committed by Adam J. Stewart
parent 9e7917f7d3
commit 64a32ea1f9
7 changed files with 293 additions and 0 deletions
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51
var/spack/repos/builtin/packages/falcon/package.py Normal file
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##############################################################################
# Copyright (c) 2013-2016, Lawrence Livermore National Security, LLC.
# Produced at the Lawrence Livermore National Laboratory.
#
# This file is part of Spack.
# Created by Todd Gamblin, tgamblin@llnl.gov, All rights reserved.
# LLNL-CODE-647188
#
# For details, see https://github.com/llnl/spack
# Please also see the NOTICE and LICENSE files for our notice and the LGPL.
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU Lesser General Public License (as
# published by the Free Software Foundation) version 2.1, February 1999.
#
# This program is distributed in the hope that it will be useful, but
# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF
# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and
# conditions of the GNU Lesser General Public License for more details.
#
# You should have received a copy of the GNU Lesser General Public
# License along with this program; if not, write to the Free Software
# Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
##############################################################################
from spack import *
class Falcon(PythonPackage):
"""Falcon: a set of tools for fast aligning long reads for consensus
and assembly.
The Falcon tool kit is a set of simple code collection which I use
for studying efficient assembly algorithm for haploid and diploid genomes.
It has some back-end code implemented in C for speed and some simple
front-end written in Python for convenience."""
homepage = "https://github.com/PacificBiosciences/FALCON"
url = "https://github.com/PacificBiosciences/FALCON.git"
version('2017-05-30',
git='https://github.com/PacificBiosciences/FALCON.git',
commit='86cec6157291679095ea6080b0cde6561eccc041')
depends_on('py-setuptools', type='run')
depends_on('py-pypeflow', type='run')
depends_on('py-networkx@1.7:1.10', type=['build', 'run'])
depends_on('pacbio-dazz-db', type='run')
depends_on('pacbio-daligner', type='run')
depends_on('pacbio-dextractor', type='run')
depends_on('pacbio-damasker', type='run')