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A new pacakge: Kaiju. (#8111)

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* A new package: kaiju.

* Replace ftp:// with https://.
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健美猞猁 2018-05-15 00:07:00 +08:00 committed by Adam J. Stewart
parent 32662c4edb
commit 341132a87f
1 changed files with 48 additions and 0 deletions
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var/spack/repos/builtin/packages/kaiju/package.py Normal file
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##############################################################################
# Copyright (c) 2013-2018, 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/spack/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 Kaiju(MakefilePackage):
"""Kaiju is a program for the taxonomic classification
of high-throughput sequencing reads."""
homepage = "https://github.com/bioinformatics-centre/kaiju"
url = "https://github.com/bioinformatics-centre/kaiju/archive/v1.6.2.zip"
version('1.6.2', '0bd85368954837aa31f3de8b87ea410b')
build_directory = 'src'
depends_on('perl-io-compress', type='run')
depends_on('py-htseq', type='run')
def edit(self, spec, prefix):
# Replace ftp:// with https://
makedb = FileFilter('util/makeDB.sh')
makedb.filter('ftp://', 'https://', string=True)
def install(self, spec, prefix):
install_tree('bin', prefix.bin)