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| -rw-r--r-- | var/spack/repos/builtin/packages/preseq/package.py | 44 |
1 files changed, 44 insertions, 0 deletions
diff --git a/var/spack/repos/builtin/packages/preseq/package.py b/var/spack/repos/builtin/packages/preseq/package.py new file mode 100644 index 0000000000..87779bcbac --- /dev/null +++ b/var/spack/repos/builtin/packages/preseq/package.py @@ -0,0 +1,44 @@ +############################################################################## +# 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 Preseq(MakefilePackage): + """The preseq package is aimed at predicting and estimating the complexity + of a genomic sequencing library, equivalent to predicting and + estimating the number of redundant reads from a given sequencing depth + and how many will be expected from additional sequencing using an + initial sequencing experiment.""" + + homepage = "https://github.com/smithlabcode/preseq" + url = "https://github.com/smithlabcode/preseq/releases/download/v2.0.2/preseq_v2.0.2.tar.bz2" + + version('2.0.2', '9f2a7b597c9f08b821db6ee55e2ea39c') + + depends_on('samtools') + depends_on('gsl') + + def setup_environment(self, spack_env, run_env): + spack_env.set('PREFIX', self.prefix) |