new package: py-rseqc (#6773)

1 files changed, 42 insertions, 0 deletions

diff --git a/var/spack/repos/builtin/packages/py-rseqc/package.py b/var/spack/repos/builtin/packages/py-rseqc/package.py
new file mode 100644
index 0000000000..bfeac28577
--- /dev/null
+++ b/var/spack/repos/builtin/packages/py-rseqc/package.py
@@ -0,0 +1,42 @@
+##############################################################################
+# 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 PyRseqc(PythonPackage):
+    """RSeQC package provides a number of useful modules that can
+    comprehensively evaluate high throughput sequence data especially RNA-seq
+    data."""
+
+    homepage = "http://rseqc.sourceforge.net"
+    url      = "https://pypi.io/packages/source/R/RSeQC/RSeQC-2.6.4.tar.gz"
+
+    version('2.6.4', '935779c452ffc84f3b8b9fb3d485c782')
+
+    depends_on('py-setuptools', type='build')
+    depends_on('py-bx-python',  type=('build', 'run'))
+    depends_on('py-numpy',      type=('build', 'run'))
+    depends_on('py-pysam',      type=('build', 'run'))
+    depends_on('r',             type=('build', 'run'))