From fd11db92e16475d370dd7ac8a39d9c35fc261e63 Mon Sep 17 00:00:00 2001 From: George Hartzell Date: Wed, 27 Jul 2016 13:25:11 -0400 Subject: Add package for bcftools --- .../repos/builtin/packages/bcftools/package.py | 43 ++++++++++++++++++++++ 1 file changed, 43 insertions(+) create mode 100644 var/spack/repos/builtin/packages/bcftools/package.py diff --git a/var/spack/repos/builtin/packages/bcftools/package.py b/var/spack/repos/builtin/packages/bcftools/package.py new file mode 100644 index 0000000000..a1b4a06dbb --- /dev/null +++ b/var/spack/repos/builtin/packages/bcftools/package.py @@ -0,0 +1,43 @@ +############################################################################## +# 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 LICENSE file 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 Bcftools(Package): + """BCFtools is a set of utilities that manipulate variant calls in the + Variant Call Format (VCF) and its binary counterpart BCF. All + commands work transparently with both VCFs and BCFs, both + uncompressed and BGZF-compressed.""" + + homepage = "http://samtools.github.io/bcftools/" + url = "https://github.com/samtools/bcftools/releases/download/1.3.1/bcftools-1.3.1.tar.bz2" + + version('1.3.1', '575001e9fca37cab0c7a7287ad4b1cdb') + + depends_on('zlib') + + def install(self, spec, prefix): + make("prefix=%s" % prefix, "all") + make("prefix=%s" % prefix, "install") -- cgit v1.2.3-60-g2f50