py-umi-tools: Create new package (#6823)

* py-umi-tools: Create new package

* py-umi-tools: fix dependencies

1 files changed, 45 insertions, 0 deletions

diff --git a/var/spack/repos/builtin/packages/py-umi-tools/package.py b/var/spack/repos/builtin/packages/py-umi-tools/package.py
new file mode 100644
index 0000000000..0d1a7f21c7
--- /dev/null
+++ b/var/spack/repos/builtin/packages/py-umi-tools/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 PyUmiTools(PythonPackage):
+    """Tools for handling Unique Molecular Identifiers in NGS data sets"""
+
+    homepage = "https://github.com/CGATOxford/UMI-tools"
+    url      = "https://github.com/CGATOxford/UMI-tools/archive/0.5.3.tar.gz"
+
+    version('0.5.3', '08bdebe30f84867d352ff5e1a2fe4d94')
+
+    depends_on('python@2.7:')
+    depends_on('py-setuptools@1.1:',   type='build')
+    depends_on('py-numpy@1.7:',        type=('build', 'run'))
+    depends_on('py-pandas@0.12:',      type=('build', 'run'))
+    depends_on('py-pysam@0.8.4:',      type=('build', 'run'))
+    depends_on('py-future',            type=('build', 'run'))
+    depends_on('py-six',               type=('build', 'run'))
+    depends_on('py-regex',             type=('build', 'run'))
+    depends_on('py-scipy',             type=('build', 'run'))
+    depends_on('py-matplotlib',        type=('build', 'run'))