partitionfidner: new package (#4791)

1 files changed, 52 insertions, 0 deletions

diff --git a/var/spack/repos/builtin/packages/partitionfinder/package.py b/var/spack/repos/builtin/packages/partitionfinder/package.py
new file mode 100644
index 0000000000..523550a64b
--- /dev/null
+++ b/var/spack/repos/builtin/packages/partitionfinder/package.py
@@ -0,0 +1,52 @@
+##############################################################################
+# 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 Partitionfinder(Package):
+    """PartitionFinder is free open source software to select best-fit
+       partitioning schemes and models of molecular evolution for
+       phylogenetic analyses."""
+
+    homepage = "https://github.com/brettc/partitionfinder"
+    url      = "https://github.com/brettc/partitionfinder/archive/v2.1.1.tar.gz"
+
+    version('2.1.1', 'b1b6539f93146c69b967cf92459ae28a')
+
+    depends_on('python@2.7.10:2.999', type=('build', 'run'))
+    depends_on('py-numpy', type=('build', 'run'))
+    depends_on('py-pandas', type=('build', 'run'))
+    depends_on('py-pytables', type=('build', 'run'))
+    depends_on('py-pyparsing', type=('build', 'run'))
+    depends_on('py-scipy', type=('build', 'run'))
+    depends_on('py-scikit-learn', type=('build', 'run'))
+
+    def install(self, spec, prefix):
+        mkdirp(prefix.bin)
+        install_tree('partfinder', prefix.partfinder)
+        install_tree('timings', prefix.timings)
+        install('PartitionFinderMorphology.py', prefix.bin)
+        install('PartitionFinderProtein.py', prefix.bin)
+        install('PartitionFinder.py', prefix.bin)