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Diffstat (limited to 'var')
| -rw-r--r-- | var/spack/repos/builtin/packages/r-rtracklayer/package.py | 53 |
1 files changed, 53 insertions, 0 deletions
diff --git a/var/spack/repos/builtin/packages/r-rtracklayer/package.py b/var/spack/repos/builtin/packages/r-rtracklayer/package.py new file mode 100644 index 0000000000..7aa171b129 --- /dev/null +++ b/var/spack/repos/builtin/packages/r-rtracklayer/package.py @@ -0,0 +1,53 @@ +############################################################################## +# 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/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 RRtracklayer(RPackage): + """Extensible framework for interacting with multiple genome browsers + (currently UCSC built-in) and manipulating annotation tracks in various + formats (currently GFF, BED, bedGraph, BED15, WIG, BigWig and 2bit + built-in). The user may export/import tracks to/from the supported + browsers, as well as query and modify the browser state, such as the + current viewport.""" + + homepage = "http://bioconductor.org/packages/rtracklayer/" + url = "https://git.bioconductor.org/packages/rtracklayer" + list_url = homepage + + version('1.36.6', git='https://git.bioconductor.org/packages/rtracklayer', commit='8c0ac7230f94e0c5a981acbb178c8de70e968131') + + depends_on('r-xml', type=('build', 'run')) + depends_on('r-biocgenerics', type=('build', 'run')) + depends_on('r-s4vectors', type=('build', 'run')) + depends_on('r-iranges', type=('build', 'run')) + depends_on('r-xvector', type=('build', 'run')) + depends_on('r-genomeinfodb', type=('build', 'run')) + depends_on('r-biostrings', type=('build', 'run')) + depends_on('r-zlibbioc', type=('build', 'run')) + depends_on('r-rcurl', type=('build', 'run')) + depends_on('r-rsamtools', type=('build', 'run')) + depends_on('r-genomicalignments', type=('build', 'run')) + depends_on('r@3.4.0:3.4.9', when='@1.36.6') |