summaryrefslogtreecommitdiff
path: root/var
diff options
context:
space:
mode:
Diffstat (limited to 'var')
-rw-r--r--var/spack/repos/builtin/packages/snap-berkeley/package.py57
1 files changed, 57 insertions, 0 deletions
diff --git a/var/spack/repos/builtin/packages/snap-berkeley/package.py b/var/spack/repos/builtin/packages/snap-berkeley/package.py
new file mode 100644
index 0000000000..9bd9cd961c
--- /dev/null
+++ b/var/spack/repos/builtin/packages/snap-berkeley/package.py
@@ -0,0 +1,57 @@
+##############################################################################
+# 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 SnapBerkeley(MakefilePackage):
+ """SNAP is a fast and accurate aligner for short DNA reads. It is
+ optimized for modern read lengths of 100 bases or higher, and takes
+ advantage of these reads to align data quickly through a hash-based
+ indexing scheme."""
+
+ homepage = "http://snap.cs.berkeley.edu/"
+ url = "https://github.com/amplab/snap/archive/v1.0beta.18.tar.gz"
+
+ version('1.0beta.18', '41e595fffa482e9eda1c3f69fb5dedeb')
+ version('0.15', 'a7d87cc822f052665a347ab0aa84d4de', preferred=True)
+
+ depends_on('zlib')
+
+ conflicts('%gcc@6:')
+ conflicts('%cce')
+ conflicts('%clang')
+ conflicts('%intel')
+ conflicts('%nag')
+ conflicts('%pgi')
+ conflicts('%xl')
+ conflicts('%xl_r')
+
+ def install(self, spec, prefix):
+ mkdirp(prefix.bin)
+ if self.spec.satisfies('@1.0beta.18:'):
+ install('snap-aligner', prefix.bin)
+ install('SNAPCommand', prefix.bin)
+ else:
+ install('snap', prefix.bin)