From 7d800a0fc2d94cad14e825faa27e1f5b2d2cbed8 Mon Sep 17 00:00:00 2001 From: Eric Date: Sat, 16 Dec 2017 20:47:11 -0600 Subject: breseq: Create new package (#6648) --- var/spack/repos/builtin/packages/breseq/package.py | 44 ++++++++++++++++++++++ 1 file changed, 44 insertions(+) create mode 100644 var/spack/repos/builtin/packages/breseq/package.py diff --git a/var/spack/repos/builtin/packages/breseq/package.py b/var/spack/repos/builtin/packages/breseq/package.py new file mode 100644 index 0000000000..d0b8c43706 --- /dev/null +++ b/var/spack/repos/builtin/packages/breseq/package.py @@ -0,0 +1,44 @@ +############################################################################## +# Copyright (c) 2013-2017, 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 Breseq(AutotoolsPackage): + """breseq is a computational pipeline for finding mutations relative to a + reference sequence in short-read DNA re-sequencing data for haploid + microbial-sized genomes.""" + + homepage = "http://barricklab.org/breseq" + url = "https://github.com/barricklab/breseq/archive/v0.31.1.tar.gz" + + version('0.31.1', 'a4e602d5481f8692833ba3d5a3cd0394') + + depends_on('autoconf', type='build') + depends_on('automake', type='build') + depends_on('libtool', type='build') + depends_on('m4', type='build') + + depends_on('bedtools2', type='run') + depends_on('r', type='run') -- cgit v1.2.3-70-g09d2