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Diffstat (limited to 'var/spack/repos/builtin/packages/vegas2/package.py')
| -rw-r--r-- | var/spack/repos/builtin/packages/vegas2/package.py | 49 |
1 files changed, 49 insertions, 0 deletions
diff --git a/var/spack/repos/builtin/packages/vegas2/package.py b/var/spack/repos/builtin/packages/vegas2/package.py new file mode 100644 index 0000000000..ad452b3384 --- /dev/null +++ b/var/spack/repos/builtin/packages/vegas2/package.py @@ -0,0 +1,49 @@ +############################################################################## +# 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 Vegas2(Package): + """"VEGAS2 is an extension that uses 1,000 Genomes data to model SNP + correlations across the autosomes and chromosome X""" + + homepage = "https://vegas2.qimrberghofer.edu.au/" + url = "https://vegas2.qimrberghofer.edu.au/vegas2v2" + + version('2', '815d80b86e9e294f99332bb5181e897a', expand=False) + + depends_on('perl', type='run') + depends_on('r', type='run') + depends_on('plink') + depends_on('r-mvtnorm', type='run') + depends_on('r-corpcor', type='run') + + def url_for_version(self, version): + url = 'https://vegas2.qimrberghofer.edu.au/vegas2v{0}' + return url.format(version) + + def install(self, spec, prefix): + mkdirp(prefix.bin) + install('vegas2v{0}'.format(self.version), prefix.bin) |