From fd11db92e16475d370dd7ac8a39d9c35fc261e63 Mon Sep 17 00:00:00 2001
From: George Hartzell <hartzell@alerce.com>
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")
--
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