From 20ab66a2e9d05fad6646348d8cbf41301189dfe6 Mon Sep 17 00:00:00 2001 From: Audrey Thoma Date: Tue, 25 Jul 2017 13:02:08 -0500 Subject: tabix: new package (#4886) * tabix: new package * fixed docs location --- var/spack/repos/builtin/packages/tabix/package.py | 50 +++++++++++++++++++++++ 1 file changed, 50 insertions(+) create mode 100644 var/spack/repos/builtin/packages/tabix/package.py (limited to 'var') diff --git a/var/spack/repos/builtin/packages/tabix/package.py b/var/spack/repos/builtin/packages/tabix/package.py new file mode 100644 index 0000000000..1e54dd4716 --- /dev/null +++ b/var/spack/repos/builtin/packages/tabix/package.py @@ -0,0 +1,50 @@ +############################################################################## +# 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 Tabix(MakefilePackage): + """Generic indexer for TAB-delimited genome position files""" + + homepage = "https://github.com/samtools/tabix" + url = "https://github.com/samtools/tabix" + + version('2013-12-16', git='https://github.com/samtools/tabix.git', commit='1ae158ac79b459f5feeed7490c67519b14ce9f35') + + depends_on('perl', type=('build', 'run')) + depends_on('python', type=('build', 'run')) + + def install(self, spec, prefix): + mkdirp(prefix.bin) + mkdirp(prefix.share.man.man1) + install('tabix', prefix.bin) + install('bgzip', prefix.bin) + install('tabix.py', prefix.bin) + install('tabix.1', prefix.share.man.man1) + install('tabix.tex', prefix.share) + install('TabixReader.java', prefix.bin) + install('libtabix.a', prefix.lib) + install_tree('perl', prefix.perl) + install_tree('python', prefix.python) -- cgit v1.2.3-60-g2f50