discovardenovo: adding new package (#6888)

1 files changed, 45 insertions, 0 deletions

diff --git a/var/spack/repos/builtin/packages/discovardenovo/package.py b/var/spack/repos/builtin/packages/discovardenovo/package.py
new file mode 100644
index 0000000000..673d75be04
--- /dev/null
+++ b/var/spack/repos/builtin/packages/discovardenovo/package.py
@@ -0,0 +1,45 @@
+##############################################################################
+# 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 Discovardenovo(AutotoolsPackage):
+    """DISCOVAR de novo is a large (and small) de novo genome assembler.
+       It quickly generates highly accurate and complete assemblies using the
+       same single library data as used by DISCOVAR. It currently doesn't
+       support variant calling, for that, please use DISCOVAR instead."""
+
+    homepage = "https://software.broadinstitute.org/software/discovar/blog/"
+    url      = "ftp://ftp.broadinstitute.org/pub/crd/DiscovarDeNovo/latest_source_code/discovardenovo-52488.tar.gz"
+
+    version('52488', '2b08c77b1b998d85be8048e5efb10358')
+
+    # lots of compiler errors with GCC7, works with 4.8.5
+    # and devs claim it works with 4.7 so I'm assuming 4.7-4.8'll work
+    conflicts('%gcc@5:')
+    conflicts('%gcc@:4.7.0')
+
+    depends_on('samtools')
+    depends_on('jemalloc')