new package: Soapdenovo2 (#7047)

1 files changed, 43 insertions, 0 deletions

diff --git a/var/spack/repos/builtin/packages/soapdenovo2/package.py b/var/spack/repos/builtin/packages/soapdenovo2/package.py
new file mode 100644
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+++ b/var/spack/repos/builtin/packages/soapdenovo2/package.py
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+##############################################################################
+# 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 Soapdenovo2(MakefilePackage):
+    """SOAPdenovo is a novel short-read assembly method that can build a de
+       novo draft assembly for the human-sized genomes. The program is
+       specially designed to assemble Illumina GA short reads. It creates
+       new opportunities for building reference sequences and carrying out
+       accurate analyses of unexplored genomes in a cost effective way."""
+
+    homepage = "https://github.com/aquaskyline/SOAPdenovo2"
+    url      = "https://github.com/aquaskyline/SOAPdenovo2/archive/r240.tar.gz"
+
+    version('240', '3bc6b63edf87bb47874bb6f126e43cd4')
+
+    def install(self, spec, prefix):
+        mkdirp(prefix.bin)
+        install('SOAPdenovo-63mer', prefix.bin)
+        install('SOAPdenovo-127mer', prefix.bin)